python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL118_b9_ATAC_muscle.end1.fastq.gz L1-0-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-0-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL187_b14_ATAC_Skin.end1.fastq.gz L1-0-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-0-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-0-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-0-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL203_b14_RNA_Skin.end1.fastq.gz L1-0-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-0-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-0-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-0-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-0-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-0-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-0-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-0-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-0-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-0-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL270_b9_RNA_Muscle.end1.fastq.gz L1-0-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-0-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-0-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-0-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL118_b9_ATAC_muscle.end1.fastq.gz L1-0-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-0-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL187_b14_ATAC_Skin.end1.fastq.gz L1-0-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-0-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-0-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-0-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL203_b14_RNA_Skin.end1.fastq.gz L1-0-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-0-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-0-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-0-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-0-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-0-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-0-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-0-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-0-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-0-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL270_b9_RNA_Muscle.end1.fastq.gz L1-0-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-0-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-0-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-0-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL118_b9_ATAC_muscle.end1.fastq.gz L1-0-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-0-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL187_b14_ATAC_Skin.end1.fastq.gz L1-0-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-0-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-0-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-0-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL203_b14_RNA_Skin.end1.fastq.gz L1-0-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-0-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-0-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-0-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-0-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-0-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-0-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-0-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-0-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-0-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL270_b9_RNA_Muscle.end1.fastq.gz L1-0-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-0-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-0-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-0-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL118_b9_ATAC_muscle.end1.fastq.gz L1-0-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-0-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL187_b14_ATAC_Skin.end1.fastq.gz L1-0-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-0-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-0-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-0-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL203_b14_RNA_Skin.end1.fastq.gz L1-0-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-0-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-0-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-0-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-0-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-0-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-0-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-0-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-0-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-0-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL270_b9_RNA_Muscle.end1.fastq.gz L1-0-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-0-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-0-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-0-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL118_b9_ATAC_muscle.end1.fastq.gz L1-0-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-0-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL187_b14_ATAC_Skin.end1.fastq.gz L1-0-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-0-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-0-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-0-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL203_b14_RNA_Skin.end1.fastq.gz L1-0-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-0-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-0-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-0-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-0-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-0-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-0-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-0-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-0-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-0-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL270_b9_RNA_Muscle.end1.fastq.gz L1-0-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-0-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-0-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-0-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL118_b9_ATAC_muscle.end1.fastq.gz L1-0-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-0-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL187_b14_ATAC_Skin.end1.fastq.gz L1-0-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-0-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-0-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-0-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL203_b14_RNA_Skin.end1.fastq.gz L1-0-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-0-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-0-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-0-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-0-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-0-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-0-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-0-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-0-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-0-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL270_b9_RNA_Muscle.end1.fastq.gz L1-0-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-0-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-0-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-0-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL118_b9_ATAC_muscle.end1.fastq.gz L1-0-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-0-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL187_b14_ATAC_Skin.end1.fastq.gz L1-0-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-0-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-0-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-0-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL203_b14_RNA_Skin.end1.fastq.gz L1-0-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-0-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-0-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-0-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-0-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-0-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-0-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-0-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-0-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-0-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL270_b9_RNA_Muscle.end1.fastq.gz L1-0-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-0-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-0-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-0-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL118_b9_ATAC_muscle.end1.fastq.gz L1-0-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-0-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL187_b14_ATAC_Skin.end1.fastq.gz L1-0-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-0-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-0-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-0-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL203_b14_RNA_Skin.end1.fastq.gz L1-0-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-0-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-0-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-0-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-0-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-0-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-0-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-0-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-0-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-0-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL270_b9_RNA_Muscle.end1.fastq.gz L1-0-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-0-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-0-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-0-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL118_b9_ATAC_muscle.end1.fastq.gz L1-0-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-0-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL187_b14_ATAC_Skin.end1.fastq.gz L1-0-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-0-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-0-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-0-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL203_b14_RNA_Skin.end1.fastq.gz L1-0-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-0-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-0-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-0-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-0-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-0-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-0-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-0-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-0-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-0-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL270_b9_RNA_Muscle.end1.fastq.gz L1-0-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-0-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-0-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-0-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-0-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL118_b9_ATAC_muscle.end1.fastq.gz L1-1-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-1-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL187_b14_ATAC_Skin.end1.fastq.gz L1-1-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-1-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-1-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-1-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL203_b14_RNA_Skin.end1.fastq.gz L1-1-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-1-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-1-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-1-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-1-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-1-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-1-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-1-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-1-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-1-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL270_b9_RNA_Muscle.end1.fastq.gz L1-1-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-1-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-1-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-1-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL118_b9_ATAC_muscle.end1.fastq.gz L1-1-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-1-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL187_b14_ATAC_Skin.end1.fastq.gz L1-1-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-1-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-1-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-1-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL203_b14_RNA_Skin.end1.fastq.gz L1-1-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-1-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-1-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-1-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-1-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-1-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-1-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-1-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-1-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-1-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL270_b9_RNA_Muscle.end1.fastq.gz L1-1-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-1-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-1-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-1-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL118_b9_ATAC_muscle.end1.fastq.gz L1-1-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-1-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL187_b14_ATAC_Skin.end1.fastq.gz L1-1-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-1-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-1-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-1-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL203_b14_RNA_Skin.end1.fastq.gz L1-1-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-1-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-1-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-1-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-1-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-1-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-1-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-1-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-1-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-1-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL270_b9_RNA_Muscle.end1.fastq.gz L1-1-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-1-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-1-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-1-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL118_b9_ATAC_muscle.end1.fastq.gz L1-1-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-1-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL187_b14_ATAC_Skin.end1.fastq.gz L1-1-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-1-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-1-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-1-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL203_b14_RNA_Skin.end1.fastq.gz L1-1-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-1-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-1-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-1-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-1-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-1-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-1-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-1-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-1-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-1-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL270_b9_RNA_Muscle.end1.fastq.gz L1-1-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-1-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-1-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-1-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL118_b9_ATAC_muscle.end1.fastq.gz L1-1-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-1-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL187_b14_ATAC_Skin.end1.fastq.gz L1-1-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-1-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-1-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-1-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL203_b14_RNA_Skin.end1.fastq.gz L1-1-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-1-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-1-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-1-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-1-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-1-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-1-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-1-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-1-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-1-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL270_b9_RNA_Muscle.end1.fastq.gz L1-1-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-1-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-1-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-1-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL118_b9_ATAC_muscle.end1.fastq.gz L1-1-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-1-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL187_b14_ATAC_Skin.end1.fastq.gz L1-1-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-1-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-1-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-1-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL203_b14_RNA_Skin.end1.fastq.gz L1-1-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-1-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-1-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-1-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-1-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-1-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-1-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-1-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-1-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-1-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL270_b9_RNA_Muscle.end1.fastq.gz L1-1-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-1-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-1-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-1-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL118_b9_ATAC_muscle.end1.fastq.gz L1-1-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-1-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL187_b14_ATAC_Skin.end1.fastq.gz L1-1-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-1-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-1-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-1-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL203_b14_RNA_Skin.end1.fastq.gz L1-1-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-1-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-1-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-1-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-1-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-1-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-1-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-1-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-1-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-1-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL270_b9_RNA_Muscle.end1.fastq.gz L1-1-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-1-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-1-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-1-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL118_b9_ATAC_muscle.end1.fastq.gz L1-1-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-1-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL187_b14_ATAC_Skin.end1.fastq.gz L1-1-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-1-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-1-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-1-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL203_b14_RNA_Skin.end1.fastq.gz L1-1-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-1-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-1-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-1-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-1-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-1-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-1-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-1-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-1-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-1-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL270_b9_RNA_Muscle.end1.fastq.gz L1-1-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-1-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-1-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-1-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL118_b9_ATAC_muscle.end1.fastq.gz L1-1-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-1-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL187_b14_ATAC_Skin.end1.fastq.gz L1-1-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-1-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-1-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-1-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL203_b14_RNA_Skin.end1.fastq.gz L1-1-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-1-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-1-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-1-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-1-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-1-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-1-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-1-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-1-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-1-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL270_b9_RNA_Muscle.end1.fastq.gz L1-1-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-1-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-1-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-1-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL118_b9_ATAC_muscle.end1.fastq.gz L1-1-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-1-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL187_b14_ATAC_Skin.end1.fastq.gz L1-1-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-1-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-1-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-1-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL203_b14_RNA_Skin.end1.fastq.gz L1-1-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-1-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-1-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-1-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-1-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-1-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-1-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-1-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-1-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-1-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL270_b9_RNA_Muscle.end1.fastq.gz L1-1-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-1-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-1-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-1-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-1-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL118_b9_ATAC_muscle.end1.fastq.gz L1-2-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-2-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL187_b14_ATAC_Skin.end1.fastq.gz L1-2-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-2-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-2-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-2-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL203_b14_RNA_Skin.end1.fastq.gz L1-2-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-2-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-2-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-2-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-2-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-2-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-2-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-2-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-2-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-2-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL270_b9_RNA_Muscle.end1.fastq.gz L1-2-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-2-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-2-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-2-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL118_b9_ATAC_muscle.end1.fastq.gz L1-2-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-2-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL187_b14_ATAC_Skin.end1.fastq.gz L1-2-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-2-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-2-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-2-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL203_b14_RNA_Skin.end1.fastq.gz L1-2-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-2-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-2-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-2-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-2-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-2-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-2-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-2-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-2-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-2-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL270_b9_RNA_Muscle.end1.fastq.gz L1-2-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-2-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-2-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-2-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL118_b9_ATAC_muscle.end1.fastq.gz L1-2-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-2-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL187_b14_ATAC_Skin.end1.fastq.gz L1-2-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-2-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-2-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-2-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL203_b14_RNA_Skin.end1.fastq.gz L1-2-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-2-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-2-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-2-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-2-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-2-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-2-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-2-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-2-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-2-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL270_b9_RNA_Muscle.end1.fastq.gz L1-2-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-2-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-2-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-2-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL118_b9_ATAC_muscle.end1.fastq.gz L1-2-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-2-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL187_b14_ATAC_Skin.end1.fastq.gz L1-2-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-2-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-2-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-2-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL203_b14_RNA_Skin.end1.fastq.gz L1-2-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-2-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-2-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-2-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-2-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-2-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-2-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-2-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-2-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-2-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL270_b9_RNA_Muscle.end1.fastq.gz L1-2-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-2-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-2-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-2-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL118_b9_ATAC_muscle.end1.fastq.gz L1-2-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-2-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL187_b14_ATAC_Skin.end1.fastq.gz L1-2-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-2-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-2-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-2-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL203_b14_RNA_Skin.end1.fastq.gz L1-2-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-2-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-2-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-2-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-2-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-2-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-2-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-2-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-2-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-2-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL270_b9_RNA_Muscle.end1.fastq.gz L1-2-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-2-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-2-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-2-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL118_b9_ATAC_muscle.end1.fastq.gz L1-2-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-2-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL187_b14_ATAC_Skin.end1.fastq.gz L1-2-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-2-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-2-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-2-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL203_b14_RNA_Skin.end1.fastq.gz L1-2-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-2-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-2-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-2-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-2-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-2-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-2-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-2-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-2-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-2-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL270_b9_RNA_Muscle.end1.fastq.gz L1-2-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-2-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-2-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-2-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL118_b9_ATAC_muscle.end1.fastq.gz L1-2-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-2-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL187_b14_ATAC_Skin.end1.fastq.gz L1-2-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-2-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-2-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-2-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL203_b14_RNA_Skin.end1.fastq.gz L1-2-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-2-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-2-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-2-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-2-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-2-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-2-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-2-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-2-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-2-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL270_b9_RNA_Muscle.end1.fastq.gz L1-2-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-2-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-2-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-2-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL118_b9_ATAC_muscle.end1.fastq.gz L1-2-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-2-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL187_b14_ATAC_Skin.end1.fastq.gz L1-2-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-2-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-2-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-2-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL203_b14_RNA_Skin.end1.fastq.gz L1-2-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-2-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-2-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-2-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-2-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-2-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-2-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-2-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-2-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-2-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL270_b9_RNA_Muscle.end1.fastq.gz L1-2-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-2-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-2-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-2-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL118_b9_ATAC_muscle.end1.fastq.gz L1-2-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-2-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL187_b14_ATAC_Skin.end1.fastq.gz L1-2-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-2-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-2-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-2-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL203_b14_RNA_Skin.end1.fastq.gz L1-2-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-2-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-2-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-2-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-2-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-2-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-2-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-2-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-2-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-2-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL270_b9_RNA_Muscle.end1.fastq.gz L1-2-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-2-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-2-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-2-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL118_b9_ATAC_muscle.end1.fastq.gz L1-2-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-2-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL187_b14_ATAC_Skin.end1.fastq.gz L1-2-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-2-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-2-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-2-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL203_b14_RNA_Skin.end1.fastq.gz L1-2-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-2-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-2-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-2-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-2-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-2-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-2-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-2-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-2-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-2-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL270_b9_RNA_Muscle.end1.fastq.gz L1-2-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-2-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-2-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-2-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-2-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL118_b9_ATAC_muscle.end1.fastq.gz L1-3-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-3-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL187_b14_ATAC_Skin.end1.fastq.gz L1-3-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-3-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-3-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-3-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL203_b14_RNA_Skin.end1.fastq.gz L1-3-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-3-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-3-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-3-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-3-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-3-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-3-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-3-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-3-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-3-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL270_b9_RNA_Muscle.end1.fastq.gz L1-3-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-3-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-3-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-3-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL118_b9_ATAC_muscle.end1.fastq.gz L1-3-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-3-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL187_b14_ATAC_Skin.end1.fastq.gz L1-3-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-3-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-3-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-3-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL203_b14_RNA_Skin.end1.fastq.gz L1-3-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-3-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-3-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-3-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-3-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-3-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-3-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-3-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-3-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-3-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL270_b9_RNA_Muscle.end1.fastq.gz L1-3-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-3-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-3-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-3-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL118_b9_ATAC_muscle.end1.fastq.gz L1-3-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-3-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL187_b14_ATAC_Skin.end1.fastq.gz L1-3-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-3-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-3-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-3-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL203_b14_RNA_Skin.end1.fastq.gz L1-3-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-3-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-3-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-3-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-3-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-3-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-3-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-3-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-3-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-3-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL270_b9_RNA_Muscle.end1.fastq.gz L1-3-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-3-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-3-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-3-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL118_b9_ATAC_muscle.end1.fastq.gz L1-3-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-3-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL187_b14_ATAC_Skin.end1.fastq.gz L1-3-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-3-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-3-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-3-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL203_b14_RNA_Skin.end1.fastq.gz L1-3-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-3-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-3-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-3-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-3-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-3-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-3-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-3-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-3-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-3-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL270_b9_RNA_Muscle.end1.fastq.gz L1-3-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-3-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-3-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-3-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL118_b9_ATAC_muscle.end1.fastq.gz L1-3-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-3-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL187_b14_ATAC_Skin.end1.fastq.gz L1-3-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-3-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-3-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-3-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL203_b14_RNA_Skin.end1.fastq.gz L1-3-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-3-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-3-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-3-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-3-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-3-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-3-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-3-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-3-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-3-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL270_b9_RNA_Muscle.end1.fastq.gz L1-3-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-3-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-3-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-3-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL118_b9_ATAC_muscle.end1.fastq.gz L1-3-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-3-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL187_b14_ATAC_Skin.end1.fastq.gz L1-3-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-3-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-3-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-3-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL203_b14_RNA_Skin.end1.fastq.gz L1-3-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-3-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-3-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-3-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-3-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-3-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-3-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-3-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-3-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-3-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL270_b9_RNA_Muscle.end1.fastq.gz L1-3-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-3-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-3-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-3-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL118_b9_ATAC_muscle.end1.fastq.gz L1-3-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-3-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL187_b14_ATAC_Skin.end1.fastq.gz L1-3-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-3-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-3-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-3-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL203_b14_RNA_Skin.end1.fastq.gz L1-3-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-3-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-3-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-3-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-3-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-3-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-3-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-3-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-3-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-3-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL270_b9_RNA_Muscle.end1.fastq.gz L1-3-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-3-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-3-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-3-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL118_b9_ATAC_muscle.end1.fastq.gz L1-3-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-3-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL187_b14_ATAC_Skin.end1.fastq.gz L1-3-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-3-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-3-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-3-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL203_b14_RNA_Skin.end1.fastq.gz L1-3-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-3-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-3-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-3-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-3-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-3-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-3-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-3-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-3-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-3-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL270_b9_RNA_Muscle.end1.fastq.gz L1-3-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-3-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-3-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-3-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL118_b9_ATAC_muscle.end1.fastq.gz L1-3-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-3-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL187_b14_ATAC_Skin.end1.fastq.gz L1-3-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-3-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-3-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-3-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL203_b14_RNA_Skin.end1.fastq.gz L1-3-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-3-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-3-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-3-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-3-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-3-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-3-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-3-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-3-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-3-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL270_b9_RNA_Muscle.end1.fastq.gz L1-3-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-3-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-3-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-3-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL118_b9_ATAC_muscle.end1.fastq.gz L1-3-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-3-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL187_b14_ATAC_Skin.end1.fastq.gz L1-3-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-3-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-3-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-3-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL203_b14_RNA_Skin.end1.fastq.gz L1-3-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-3-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-3-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-3-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-3-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-3-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-3-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-3-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-3-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-3-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL270_b9_RNA_Muscle.end1.fastq.gz L1-3-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-3-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-3-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-3-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-3-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL118_b9_ATAC_muscle.end1.fastq.gz L1-4-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-4-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL187_b14_ATAC_Skin.end1.fastq.gz L1-4-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-4-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-4-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-4-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL203_b14_RNA_Skin.end1.fastq.gz L1-4-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-4-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-4-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-4-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-4-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-4-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-4-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-4-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-4-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-4-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL270_b9_RNA_Muscle.end1.fastq.gz L1-4-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-4-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-4-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-4-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL118_b9_ATAC_muscle.end1.fastq.gz L1-4-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-4-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL187_b14_ATAC_Skin.end1.fastq.gz L1-4-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-4-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-4-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-4-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL203_b14_RNA_Skin.end1.fastq.gz L1-4-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-4-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-4-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-4-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-4-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-4-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-4-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-4-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-4-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-4-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL270_b9_RNA_Muscle.end1.fastq.gz L1-4-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-4-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-4-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-4-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL118_b9_ATAC_muscle.end1.fastq.gz L1-4-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-4-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL187_b14_ATAC_Skin.end1.fastq.gz L1-4-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-4-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-4-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-4-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL203_b14_RNA_Skin.end1.fastq.gz L1-4-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-4-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-4-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-4-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-4-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-4-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-4-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-4-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-4-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-4-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL270_b9_RNA_Muscle.end1.fastq.gz L1-4-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-4-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-4-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-4-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL118_b9_ATAC_muscle.end1.fastq.gz L1-4-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-4-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL187_b14_ATAC_Skin.end1.fastq.gz L1-4-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-4-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-4-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-4-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL203_b14_RNA_Skin.end1.fastq.gz L1-4-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-4-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-4-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-4-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-4-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-4-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-4-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-4-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-4-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-4-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL270_b9_RNA_Muscle.end1.fastq.gz L1-4-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-4-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-4-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-4-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL118_b9_ATAC_muscle.end1.fastq.gz L1-4-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-4-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL187_b14_ATAC_Skin.end1.fastq.gz L1-4-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-4-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-4-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-4-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL203_b14_RNA_Skin.end1.fastq.gz L1-4-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-4-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-4-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-4-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-4-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-4-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-4-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-4-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-4-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-4-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL270_b9_RNA_Muscle.end1.fastq.gz L1-4-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-4-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-4-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-4-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL118_b9_ATAC_muscle.end1.fastq.gz L1-4-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-4-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL187_b14_ATAC_Skin.end1.fastq.gz L1-4-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-4-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-4-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-4-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL203_b14_RNA_Skin.end1.fastq.gz L1-4-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-4-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-4-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-4-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-4-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-4-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-4-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-4-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-4-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-4-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL270_b9_RNA_Muscle.end1.fastq.gz L1-4-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-4-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-4-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-4-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL118_b9_ATAC_muscle.end1.fastq.gz L1-4-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-4-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL187_b14_ATAC_Skin.end1.fastq.gz L1-4-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-4-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-4-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-4-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL203_b14_RNA_Skin.end1.fastq.gz L1-4-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-4-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-4-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-4-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-4-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-4-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-4-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-4-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-4-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-4-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL270_b9_RNA_Muscle.end1.fastq.gz L1-4-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-4-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-4-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-4-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL118_b9_ATAC_muscle.end1.fastq.gz L1-4-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-4-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL187_b14_ATAC_Skin.end1.fastq.gz L1-4-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-4-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-4-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-4-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL203_b14_RNA_Skin.end1.fastq.gz L1-4-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-4-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-4-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-4-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-4-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-4-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-4-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-4-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-4-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-4-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL270_b9_RNA_Muscle.end1.fastq.gz L1-4-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-4-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-4-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-4-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL118_b9_ATAC_muscle.end1.fastq.gz L1-4-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-4-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL187_b14_ATAC_Skin.end1.fastq.gz L1-4-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-4-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-4-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-4-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL203_b14_RNA_Skin.end1.fastq.gz L1-4-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-4-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-4-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-4-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-4-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-4-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-4-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-4-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-4-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-4-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL270_b9_RNA_Muscle.end1.fastq.gz L1-4-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-4-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-4-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-4-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL118_b9_ATAC_muscle.end1.fastq.gz L1-4-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-4-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL187_b14_ATAC_Skin.end1.fastq.gz L1-4-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-4-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-4-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-4-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL203_b14_RNA_Skin.end1.fastq.gz L1-4-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-4-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-4-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-4-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-4-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-4-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-4-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-4-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-4-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-4-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL270_b9_RNA_Muscle.end1.fastq.gz L1-4-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-4-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-4-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-4-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-4-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL118_b9_ATAC_muscle.end1.fastq.gz L1-5-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-5-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL187_b14_ATAC_Skin.end1.fastq.gz L1-5-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-5-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-5-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-5-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL203_b14_RNA_Skin.end1.fastq.gz L1-5-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-5-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-5-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-5-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-5-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-5-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-5-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-5-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-5-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-5-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL270_b9_RNA_Muscle.end1.fastq.gz L1-5-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-5-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-5-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-5-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL118_b9_ATAC_muscle.end1.fastq.gz L1-5-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-5-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL187_b14_ATAC_Skin.end1.fastq.gz L1-5-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-5-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-5-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-5-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL203_b14_RNA_Skin.end1.fastq.gz L1-5-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-5-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-5-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-5-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-5-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-5-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-5-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-5-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-5-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-5-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL270_b9_RNA_Muscle.end1.fastq.gz L1-5-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-5-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-5-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-5-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL118_b9_ATAC_muscle.end1.fastq.gz L1-5-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-5-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL187_b14_ATAC_Skin.end1.fastq.gz L1-5-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-5-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-5-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-5-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL203_b14_RNA_Skin.end1.fastq.gz L1-5-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-5-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-5-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-5-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-5-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-5-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-5-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-5-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-5-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-5-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL270_b9_RNA_Muscle.end1.fastq.gz L1-5-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-5-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-5-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-5-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL118_b9_ATAC_muscle.end1.fastq.gz L1-5-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-5-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL187_b14_ATAC_Skin.end1.fastq.gz L1-5-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-5-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-5-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-5-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL203_b14_RNA_Skin.end1.fastq.gz L1-5-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-5-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-5-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-5-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-5-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-5-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-5-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-5-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-5-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-5-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL270_b9_RNA_Muscle.end1.fastq.gz L1-5-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-5-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-5-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-5-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL118_b9_ATAC_muscle.end1.fastq.gz L1-5-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-5-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL187_b14_ATAC_Skin.end1.fastq.gz L1-5-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-5-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-5-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-5-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL203_b14_RNA_Skin.end1.fastq.gz L1-5-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-5-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-5-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-5-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-5-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-5-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-5-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-5-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-5-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-5-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL270_b9_RNA_Muscle.end1.fastq.gz L1-5-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-5-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-5-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-5-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL118_b9_ATAC_muscle.end1.fastq.gz L1-5-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-5-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL187_b14_ATAC_Skin.end1.fastq.gz L1-5-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-5-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-5-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-5-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL203_b14_RNA_Skin.end1.fastq.gz L1-5-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-5-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-5-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-5-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-5-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-5-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-5-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-5-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-5-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-5-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL270_b9_RNA_Muscle.end1.fastq.gz L1-5-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-5-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-5-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-5-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL118_b9_ATAC_muscle.end1.fastq.gz L1-5-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-5-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL187_b14_ATAC_Skin.end1.fastq.gz L1-5-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-5-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-5-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-5-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL203_b14_RNA_Skin.end1.fastq.gz L1-5-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-5-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-5-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-5-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-5-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-5-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-5-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-5-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-5-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-5-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL270_b9_RNA_Muscle.end1.fastq.gz L1-5-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-5-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-5-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-5-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL118_b9_ATAC_muscle.end1.fastq.gz L1-5-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-5-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL187_b14_ATAC_Skin.end1.fastq.gz L1-5-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-5-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-5-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-5-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL203_b14_RNA_Skin.end1.fastq.gz L1-5-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-5-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-5-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-5-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-5-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-5-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-5-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-5-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-5-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-5-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL270_b9_RNA_Muscle.end1.fastq.gz L1-5-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-5-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-5-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-5-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL118_b9_ATAC_muscle.end1.fastq.gz L1-5-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-5-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL187_b14_ATAC_Skin.end1.fastq.gz L1-5-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-5-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-5-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-5-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL203_b14_RNA_Skin.end1.fastq.gz L1-5-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-5-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-5-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-5-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-5-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-5-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-5-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-5-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-5-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-5-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL270_b9_RNA_Muscle.end1.fastq.gz L1-5-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-5-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-5-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-5-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL118_b9_ATAC_muscle.end1.fastq.gz L1-5-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-5-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL187_b14_ATAC_Skin.end1.fastq.gz L1-5-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-5-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-5-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-5-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL203_b14_RNA_Skin.end1.fastq.gz L1-5-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-5-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-5-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-5-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-5-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-5-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-5-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-5-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-5-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-5-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL270_b9_RNA_Muscle.end1.fastq.gz L1-5-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-5-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-5-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-5-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-5-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL118_b9_ATAC_muscle.end1.fastq.gz L1-6-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-6-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL187_b14_ATAC_Skin.end1.fastq.gz L1-6-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-6-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-6-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-6-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL203_b14_RNA_Skin.end1.fastq.gz L1-6-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-6-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-6-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-6-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-6-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-6-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-6-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-6-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-6-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-6-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL270_b9_RNA_Muscle.end1.fastq.gz L1-6-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-6-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-6-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-6-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL118_b9_ATAC_muscle.end1.fastq.gz L1-6-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-6-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL187_b14_ATAC_Skin.end1.fastq.gz L1-6-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-6-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-6-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-6-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL203_b14_RNA_Skin.end1.fastq.gz L1-6-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-6-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-6-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-6-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-6-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-6-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-6-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-6-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-6-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-6-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL270_b9_RNA_Muscle.end1.fastq.gz L1-6-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-6-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-6-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-6-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL118_b9_ATAC_muscle.end1.fastq.gz L1-6-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-6-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL187_b14_ATAC_Skin.end1.fastq.gz L1-6-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-6-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-6-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-6-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL203_b14_RNA_Skin.end1.fastq.gz L1-6-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-6-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-6-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-6-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-6-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-6-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-6-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-6-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-6-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-6-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL270_b9_RNA_Muscle.end1.fastq.gz L1-6-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-6-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-6-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-6-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL118_b9_ATAC_muscle.end1.fastq.gz L1-6-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-6-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL187_b14_ATAC_Skin.end1.fastq.gz L1-6-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-6-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-6-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-6-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL203_b14_RNA_Skin.end1.fastq.gz L1-6-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-6-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-6-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-6-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-6-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-6-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-6-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-6-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-6-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-6-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL270_b9_RNA_Muscle.end1.fastq.gz L1-6-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-6-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-6-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-6-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL118_b9_ATAC_muscle.end1.fastq.gz L1-6-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-6-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL187_b14_ATAC_Skin.end1.fastq.gz L1-6-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-6-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-6-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-6-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL203_b14_RNA_Skin.end1.fastq.gz L1-6-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-6-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-6-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-6-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-6-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-6-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-6-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-6-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-6-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-6-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL270_b9_RNA_Muscle.end1.fastq.gz L1-6-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-6-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-6-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-6-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL118_b9_ATAC_muscle.end1.fastq.gz L1-6-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-6-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL187_b14_ATAC_Skin.end1.fastq.gz L1-6-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-6-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-6-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-6-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL203_b14_RNA_Skin.end1.fastq.gz L1-6-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-6-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-6-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-6-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-6-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-6-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-6-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-6-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-6-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-6-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL270_b9_RNA_Muscle.end1.fastq.gz L1-6-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-6-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-6-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-6-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL118_b9_ATAC_muscle.end1.fastq.gz L1-6-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-6-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL187_b14_ATAC_Skin.end1.fastq.gz L1-6-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-6-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-6-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-6-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL203_b14_RNA_Skin.end1.fastq.gz L1-6-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-6-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-6-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-6-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-6-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-6-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-6-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-6-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-6-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-6-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL270_b9_RNA_Muscle.end1.fastq.gz L1-6-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-6-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-6-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-6-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL118_b9_ATAC_muscle.end1.fastq.gz L1-6-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-6-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL187_b14_ATAC_Skin.end1.fastq.gz L1-6-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-6-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-6-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-6-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL203_b14_RNA_Skin.end1.fastq.gz L1-6-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-6-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-6-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-6-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-6-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-6-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-6-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-6-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-6-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-6-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL270_b9_RNA_Muscle.end1.fastq.gz L1-6-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-6-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-6-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-6-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL118_b9_ATAC_muscle.end1.fastq.gz L1-6-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-6-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL187_b14_ATAC_Skin.end1.fastq.gz L1-6-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-6-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-6-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-6-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL203_b14_RNA_Skin.end1.fastq.gz L1-6-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-6-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-6-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-6-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-6-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-6-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-6-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-6-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-6-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-6-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL270_b9_RNA_Muscle.end1.fastq.gz L1-6-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-6-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-6-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-6-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL118_b9_ATAC_muscle.end1.fastq.gz L1-6-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-6-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL187_b14_ATAC_Skin.end1.fastq.gz L1-6-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-6-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-6-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-6-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL203_b14_RNA_Skin.end1.fastq.gz L1-6-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-6-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-6-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-6-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-6-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-6-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-6-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-6-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-6-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-6-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL270_b9_RNA_Muscle.end1.fastq.gz L1-6-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-6-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-6-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-6-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-6-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL118_b9_ATAC_muscle.end1.fastq.gz L1-7-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-7-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL187_b14_ATAC_Skin.end1.fastq.gz L1-7-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-7-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-7-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-7-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL203_b14_RNA_Skin.end1.fastq.gz L1-7-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-7-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-7-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-7-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-7-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-7-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-7-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-7-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-7-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-7-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL270_b9_RNA_Muscle.end1.fastq.gz L1-7-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-7-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-7-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-7-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL118_b9_ATAC_muscle.end1.fastq.gz L1-7-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-7-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL187_b14_ATAC_Skin.end1.fastq.gz L1-7-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-7-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-7-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-7-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL203_b14_RNA_Skin.end1.fastq.gz L1-7-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-7-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-7-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-7-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-7-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-7-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-7-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-7-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-7-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-7-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL270_b9_RNA_Muscle.end1.fastq.gz L1-7-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-7-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-7-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-7-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL118_b9_ATAC_muscle.end1.fastq.gz L1-7-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-7-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL187_b14_ATAC_Skin.end1.fastq.gz L1-7-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-7-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-7-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-7-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL203_b14_RNA_Skin.end1.fastq.gz L1-7-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-7-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-7-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-7-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-7-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-7-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-7-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-7-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-7-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-7-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL270_b9_RNA_Muscle.end1.fastq.gz L1-7-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-7-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-7-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-7-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL118_b9_ATAC_muscle.end1.fastq.gz L1-7-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-7-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL187_b14_ATAC_Skin.end1.fastq.gz L1-7-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-7-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-7-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-7-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL203_b14_RNA_Skin.end1.fastq.gz L1-7-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-7-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-7-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-7-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-7-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-7-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-7-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-7-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-7-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-7-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL270_b9_RNA_Muscle.end1.fastq.gz L1-7-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-7-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-7-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-7-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL118_b9_ATAC_muscle.end1.fastq.gz L1-7-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-7-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL187_b14_ATAC_Skin.end1.fastq.gz L1-7-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-7-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-7-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-7-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL203_b14_RNA_Skin.end1.fastq.gz L1-7-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-7-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-7-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-7-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-7-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-7-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-7-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-7-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-7-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-7-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL270_b9_RNA_Muscle.end1.fastq.gz L1-7-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-7-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-7-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-7-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL118_b9_ATAC_muscle.end1.fastq.gz L1-7-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-7-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL187_b14_ATAC_Skin.end1.fastq.gz L1-7-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-7-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-7-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-7-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL203_b14_RNA_Skin.end1.fastq.gz L1-7-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-7-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-7-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-7-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-7-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-7-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-7-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-7-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-7-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-7-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL270_b9_RNA_Muscle.end1.fastq.gz L1-7-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-7-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-7-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-7-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL118_b9_ATAC_muscle.end1.fastq.gz L1-7-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-7-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL187_b14_ATAC_Skin.end1.fastq.gz L1-7-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-7-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-7-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-7-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL203_b14_RNA_Skin.end1.fastq.gz L1-7-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-7-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-7-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-7-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-7-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-7-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-7-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-7-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-7-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-7-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL270_b9_RNA_Muscle.end1.fastq.gz L1-7-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-7-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-7-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-7-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL118_b9_ATAC_muscle.end1.fastq.gz L1-7-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-7-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL187_b14_ATAC_Skin.end1.fastq.gz L1-7-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-7-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-7-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-7-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL203_b14_RNA_Skin.end1.fastq.gz L1-7-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-7-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-7-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-7-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-7-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-7-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-7-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-7-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-7-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-7-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL270_b9_RNA_Muscle.end1.fastq.gz L1-7-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-7-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-7-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-7-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL118_b9_ATAC_muscle.end1.fastq.gz L1-7-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L1-7-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL187_b14_ATAC_Skin.end1.fastq.gz L1-7-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L1-7-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L1-7-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L1-7-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL203_b14_RNA_Skin.end1.fastq.gz L1-7-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L1-7-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L1-7-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L1-7-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L1-7-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L1-7-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L1-7-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L1-7-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L1-7-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L1-7-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L1-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L1-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L1-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL270_b9_RNA_Muscle.end1.fastq.gz L1-7-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L1-7-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L1-7-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L1-7-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L1-7-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL118_b9_ATAC_muscle.end1.fastq.gz L2-0-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-0-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL187_b14_ATAC_Skin.end1.fastq.gz L2-0-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-0-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-0-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-0-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL203_b14_RNA_Skin.end1.fastq.gz L2-0-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-0-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-0-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-0-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-0-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-0-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-0-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-0-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-0-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-0-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL270_b9_RNA_Muscle.end1.fastq.gz L2-0-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-0-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-0-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-0-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL118_b9_ATAC_muscle.end1.fastq.gz L2-0-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-0-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL187_b14_ATAC_Skin.end1.fastq.gz L2-0-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-0-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-0-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-0-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL203_b14_RNA_Skin.end1.fastq.gz L2-0-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-0-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-0-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-0-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-0-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-0-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-0-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-0-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-0-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-0-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL270_b9_RNA_Muscle.end1.fastq.gz L2-0-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-0-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-0-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-0-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL118_b9_ATAC_muscle.end1.fastq.gz L2-0-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-0-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL187_b14_ATAC_Skin.end1.fastq.gz L2-0-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-0-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-0-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-0-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL203_b14_RNA_Skin.end1.fastq.gz L2-0-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-0-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-0-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-0-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-0-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-0-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-0-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-0-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-0-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-0-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL270_b9_RNA_Muscle.end1.fastq.gz L2-0-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-0-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-0-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-0-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL118_b9_ATAC_muscle.end1.fastq.gz L2-0-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-0-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL187_b14_ATAC_Skin.end1.fastq.gz L2-0-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-0-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-0-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-0-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL203_b14_RNA_Skin.end1.fastq.gz L2-0-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-0-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-0-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-0-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-0-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-0-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-0-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-0-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-0-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-0-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL270_b9_RNA_Muscle.end1.fastq.gz L2-0-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-0-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-0-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-0-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL118_b9_ATAC_muscle.end1.fastq.gz L2-0-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-0-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL187_b14_ATAC_Skin.end1.fastq.gz L2-0-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-0-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-0-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-0-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL203_b14_RNA_Skin.end1.fastq.gz L2-0-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-0-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-0-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-0-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-0-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-0-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-0-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-0-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-0-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-0-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL270_b9_RNA_Muscle.end1.fastq.gz L2-0-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-0-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-0-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-0-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL118_b9_ATAC_muscle.end1.fastq.gz L2-0-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-0-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL187_b14_ATAC_Skin.end1.fastq.gz L2-0-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-0-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-0-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-0-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL203_b14_RNA_Skin.end1.fastq.gz L2-0-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-0-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-0-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-0-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-0-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-0-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-0-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-0-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-0-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-0-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL270_b9_RNA_Muscle.end1.fastq.gz L2-0-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-0-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-0-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-0-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL118_b9_ATAC_muscle.end1.fastq.gz L2-0-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-0-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL187_b14_ATAC_Skin.end1.fastq.gz L2-0-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-0-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-0-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-0-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL203_b14_RNA_Skin.end1.fastq.gz L2-0-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-0-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-0-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-0-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-0-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-0-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-0-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-0-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-0-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-0-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL270_b9_RNA_Muscle.end1.fastq.gz L2-0-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-0-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-0-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-0-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL118_b9_ATAC_muscle.end1.fastq.gz L2-0-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-0-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL187_b14_ATAC_Skin.end1.fastq.gz L2-0-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-0-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-0-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-0-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL203_b14_RNA_Skin.end1.fastq.gz L2-0-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-0-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-0-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-0-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-0-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-0-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-0-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-0-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-0-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-0-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL270_b9_RNA_Muscle.end1.fastq.gz L2-0-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-0-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-0-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-0-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL118_b9_ATAC_muscle.end1.fastq.gz L2-0-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-0-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL187_b14_ATAC_Skin.end1.fastq.gz L2-0-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-0-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-0-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-0-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL203_b14_RNA_Skin.end1.fastq.gz L2-0-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-0-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-0-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-0-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-0-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-0-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-0-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-0-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-0-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-0-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL270_b9_RNA_Muscle.end1.fastq.gz L2-0-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-0-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-0-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-0-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-0-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL118_b9_ATAC_muscle.end1.fastq.gz L2-1-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-1-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL187_b14_ATAC_Skin.end1.fastq.gz L2-1-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-1-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-1-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-1-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL203_b14_RNA_Skin.end1.fastq.gz L2-1-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-1-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-1-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-1-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-1-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-1-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-1-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-1-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-1-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-1-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL270_b9_RNA_Muscle.end1.fastq.gz L2-1-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-1-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-1-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-1-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL118_b9_ATAC_muscle.end1.fastq.gz L2-1-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-1-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL187_b14_ATAC_Skin.end1.fastq.gz L2-1-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-1-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-1-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-1-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL203_b14_RNA_Skin.end1.fastq.gz L2-1-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-1-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-1-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-1-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-1-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-1-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-1-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-1-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-1-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-1-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL270_b9_RNA_Muscle.end1.fastq.gz L2-1-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-1-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-1-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-1-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL118_b9_ATAC_muscle.end1.fastq.gz L2-1-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-1-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL187_b14_ATAC_Skin.end1.fastq.gz L2-1-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-1-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-1-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-1-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL203_b14_RNA_Skin.end1.fastq.gz L2-1-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-1-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-1-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-1-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-1-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-1-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-1-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-1-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-1-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-1-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL270_b9_RNA_Muscle.end1.fastq.gz L2-1-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-1-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-1-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-1-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL118_b9_ATAC_muscle.end1.fastq.gz L2-1-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-1-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL187_b14_ATAC_Skin.end1.fastq.gz L2-1-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-1-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-1-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-1-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL203_b14_RNA_Skin.end1.fastq.gz L2-1-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-1-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-1-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-1-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-1-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-1-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-1-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-1-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-1-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-1-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL270_b9_RNA_Muscle.end1.fastq.gz L2-1-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-1-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-1-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-1-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL118_b9_ATAC_muscle.end1.fastq.gz L2-1-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-1-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL187_b14_ATAC_Skin.end1.fastq.gz L2-1-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-1-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-1-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-1-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL203_b14_RNA_Skin.end1.fastq.gz L2-1-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-1-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-1-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-1-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-1-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-1-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-1-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-1-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-1-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-1-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL270_b9_RNA_Muscle.end1.fastq.gz L2-1-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-1-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-1-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-1-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL118_b9_ATAC_muscle.end1.fastq.gz L2-1-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-1-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL187_b14_ATAC_Skin.end1.fastq.gz L2-1-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-1-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-1-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-1-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL203_b14_RNA_Skin.end1.fastq.gz L2-1-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-1-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-1-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-1-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-1-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-1-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-1-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-1-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-1-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-1-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL270_b9_RNA_Muscle.end1.fastq.gz L2-1-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-1-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-1-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-1-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL118_b9_ATAC_muscle.end1.fastq.gz L2-1-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-1-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL187_b14_ATAC_Skin.end1.fastq.gz L2-1-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-1-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-1-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-1-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL203_b14_RNA_Skin.end1.fastq.gz L2-1-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-1-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-1-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-1-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-1-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-1-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-1-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-1-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-1-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-1-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL270_b9_RNA_Muscle.end1.fastq.gz L2-1-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-1-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-1-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-1-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL118_b9_ATAC_muscle.end1.fastq.gz L2-1-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-1-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL187_b14_ATAC_Skin.end1.fastq.gz L2-1-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-1-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-1-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-1-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL203_b14_RNA_Skin.end1.fastq.gz L2-1-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-1-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-1-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-1-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-1-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-1-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-1-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-1-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-1-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-1-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL270_b9_RNA_Muscle.end1.fastq.gz L2-1-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-1-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-1-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-1-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL118_b9_ATAC_muscle.end1.fastq.gz L2-1-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-1-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL187_b14_ATAC_Skin.end1.fastq.gz L2-1-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-1-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-1-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-1-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL203_b14_RNA_Skin.end1.fastq.gz L2-1-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-1-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-1-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-1-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-1-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-1-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-1-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-1-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-1-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-1-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL270_b9_RNA_Muscle.end1.fastq.gz L2-1-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-1-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-1-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-1-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL118_b9_ATAC_muscle.end1.fastq.gz L2-1-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-1-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL187_b14_ATAC_Skin.end1.fastq.gz L2-1-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-1-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-1-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-1-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL203_b14_RNA_Skin.end1.fastq.gz L2-1-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-1-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-1-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-1-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-1-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-1-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-1-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-1-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-1-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-1-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL270_b9_RNA_Muscle.end1.fastq.gz L2-1-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-1-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-1-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-1-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-1-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL118_b9_ATAC_muscle.end1.fastq.gz L2-2-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-2-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL187_b14_ATAC_Skin.end1.fastq.gz L2-2-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-2-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-2-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-2-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL203_b14_RNA_Skin.end1.fastq.gz L2-2-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-2-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-2-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-2-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-2-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-2-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-2-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-2-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-2-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-2-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL270_b9_RNA_Muscle.end1.fastq.gz L2-2-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-2-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-2-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-2-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL118_b9_ATAC_muscle.end1.fastq.gz L2-2-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-2-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL187_b14_ATAC_Skin.end1.fastq.gz L2-2-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-2-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-2-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-2-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL203_b14_RNA_Skin.end1.fastq.gz L2-2-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-2-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-2-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-2-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-2-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-2-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-2-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-2-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-2-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-2-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL270_b9_RNA_Muscle.end1.fastq.gz L2-2-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-2-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-2-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-2-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL118_b9_ATAC_muscle.end1.fastq.gz L2-2-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-2-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL187_b14_ATAC_Skin.end1.fastq.gz L2-2-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-2-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-2-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-2-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL203_b14_RNA_Skin.end1.fastq.gz L2-2-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-2-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-2-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-2-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-2-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-2-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-2-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-2-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-2-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-2-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL270_b9_RNA_Muscle.end1.fastq.gz L2-2-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-2-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-2-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-2-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL118_b9_ATAC_muscle.end1.fastq.gz L2-2-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-2-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL187_b14_ATAC_Skin.end1.fastq.gz L2-2-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-2-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-2-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-2-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL203_b14_RNA_Skin.end1.fastq.gz L2-2-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-2-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-2-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-2-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-2-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-2-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-2-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-2-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-2-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-2-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL270_b9_RNA_Muscle.end1.fastq.gz L2-2-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-2-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-2-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-2-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL118_b9_ATAC_muscle.end1.fastq.gz L2-2-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-2-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL187_b14_ATAC_Skin.end1.fastq.gz L2-2-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-2-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-2-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-2-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL203_b14_RNA_Skin.end1.fastq.gz L2-2-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-2-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-2-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-2-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-2-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-2-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-2-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-2-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-2-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-2-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL270_b9_RNA_Muscle.end1.fastq.gz L2-2-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-2-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-2-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-2-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL118_b9_ATAC_muscle.end1.fastq.gz L2-2-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-2-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL187_b14_ATAC_Skin.end1.fastq.gz L2-2-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-2-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-2-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-2-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL203_b14_RNA_Skin.end1.fastq.gz L2-2-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-2-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-2-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-2-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-2-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-2-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-2-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-2-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-2-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-2-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL270_b9_RNA_Muscle.end1.fastq.gz L2-2-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-2-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-2-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-2-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL118_b9_ATAC_muscle.end1.fastq.gz L2-2-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-2-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL187_b14_ATAC_Skin.end1.fastq.gz L2-2-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-2-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-2-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-2-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL203_b14_RNA_Skin.end1.fastq.gz L2-2-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-2-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-2-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-2-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-2-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-2-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-2-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-2-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-2-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-2-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL270_b9_RNA_Muscle.end1.fastq.gz L2-2-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-2-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-2-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-2-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL118_b9_ATAC_muscle.end1.fastq.gz L2-2-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-2-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL187_b14_ATAC_Skin.end1.fastq.gz L2-2-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-2-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-2-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-2-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL203_b14_RNA_Skin.end1.fastq.gz L2-2-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-2-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-2-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-2-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-2-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-2-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-2-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-2-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-2-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-2-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL270_b9_RNA_Muscle.end1.fastq.gz L2-2-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-2-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-2-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-2-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL118_b9_ATAC_muscle.end1.fastq.gz L2-2-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-2-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL187_b14_ATAC_Skin.end1.fastq.gz L2-2-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-2-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-2-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-2-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL203_b14_RNA_Skin.end1.fastq.gz L2-2-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-2-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-2-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-2-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-2-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-2-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-2-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-2-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-2-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-2-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL270_b9_RNA_Muscle.end1.fastq.gz L2-2-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-2-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-2-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-2-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL118_b9_ATAC_muscle.end1.fastq.gz L2-2-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-2-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL187_b14_ATAC_Skin.end1.fastq.gz L2-2-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-2-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-2-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-2-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL203_b14_RNA_Skin.end1.fastq.gz L2-2-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-2-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-2-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-2-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-2-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-2-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-2-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-2-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-2-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-2-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL270_b9_RNA_Muscle.end1.fastq.gz L2-2-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-2-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-2-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-2-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-2-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL118_b9_ATAC_muscle.end1.fastq.gz L2-3-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-3-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL187_b14_ATAC_Skin.end1.fastq.gz L2-3-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-3-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-3-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-3-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL203_b14_RNA_Skin.end1.fastq.gz L2-3-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-3-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-3-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-3-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-3-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-3-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-3-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-3-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-3-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-3-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL270_b9_RNA_Muscle.end1.fastq.gz L2-3-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-3-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-3-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-3-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL118_b9_ATAC_muscle.end1.fastq.gz L2-3-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-3-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL187_b14_ATAC_Skin.end1.fastq.gz L2-3-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-3-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-3-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-3-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL203_b14_RNA_Skin.end1.fastq.gz L2-3-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-3-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-3-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-3-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-3-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-3-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-3-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-3-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-3-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-3-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL270_b9_RNA_Muscle.end1.fastq.gz L2-3-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-3-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-3-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-3-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL118_b9_ATAC_muscle.end1.fastq.gz L2-3-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-3-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL187_b14_ATAC_Skin.end1.fastq.gz L2-3-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-3-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-3-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-3-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL203_b14_RNA_Skin.end1.fastq.gz L2-3-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-3-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-3-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-3-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-3-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-3-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-3-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-3-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-3-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-3-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL270_b9_RNA_Muscle.end1.fastq.gz L2-3-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-3-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-3-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-3-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL118_b9_ATAC_muscle.end1.fastq.gz L2-3-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-3-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL187_b14_ATAC_Skin.end1.fastq.gz L2-3-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-3-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-3-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-3-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL203_b14_RNA_Skin.end1.fastq.gz L2-3-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-3-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-3-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-3-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-3-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-3-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-3-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-3-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-3-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-3-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL270_b9_RNA_Muscle.end1.fastq.gz L2-3-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-3-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-3-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-3-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL118_b9_ATAC_muscle.end1.fastq.gz L2-3-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-3-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL187_b14_ATAC_Skin.end1.fastq.gz L2-3-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-3-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-3-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-3-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL203_b14_RNA_Skin.end1.fastq.gz L2-3-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-3-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-3-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-3-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-3-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-3-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-3-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-3-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-3-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-3-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL270_b9_RNA_Muscle.end1.fastq.gz L2-3-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-3-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-3-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-3-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL118_b9_ATAC_muscle.end1.fastq.gz L2-3-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-3-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL187_b14_ATAC_Skin.end1.fastq.gz L2-3-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-3-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-3-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-3-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL203_b14_RNA_Skin.end1.fastq.gz L2-3-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-3-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-3-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-3-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-3-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-3-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-3-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-3-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-3-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-3-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL270_b9_RNA_Muscle.end1.fastq.gz L2-3-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-3-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-3-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-3-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL118_b9_ATAC_muscle.end1.fastq.gz L2-3-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-3-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL187_b14_ATAC_Skin.end1.fastq.gz L2-3-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-3-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-3-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-3-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL203_b14_RNA_Skin.end1.fastq.gz L2-3-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-3-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-3-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-3-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-3-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-3-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-3-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-3-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-3-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-3-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL270_b9_RNA_Muscle.end1.fastq.gz L2-3-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-3-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-3-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-3-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL118_b9_ATAC_muscle.end1.fastq.gz L2-3-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-3-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL187_b14_ATAC_Skin.end1.fastq.gz L2-3-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-3-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-3-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-3-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL203_b14_RNA_Skin.end1.fastq.gz L2-3-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-3-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-3-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-3-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-3-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-3-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-3-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-3-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-3-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-3-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL270_b9_RNA_Muscle.end1.fastq.gz L2-3-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-3-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-3-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-3-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL118_b9_ATAC_muscle.end1.fastq.gz L2-3-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-3-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL187_b14_ATAC_Skin.end1.fastq.gz L2-3-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-3-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-3-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-3-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL203_b14_RNA_Skin.end1.fastq.gz L2-3-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-3-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-3-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-3-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-3-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-3-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-3-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-3-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-3-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-3-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL270_b9_RNA_Muscle.end1.fastq.gz L2-3-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-3-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-3-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-3-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL118_b9_ATAC_muscle.end1.fastq.gz L2-3-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-3-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL187_b14_ATAC_Skin.end1.fastq.gz L2-3-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-3-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-3-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-3-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL203_b14_RNA_Skin.end1.fastq.gz L2-3-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-3-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-3-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-3-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-3-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-3-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-3-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-3-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-3-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-3-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL270_b9_RNA_Muscle.end1.fastq.gz L2-3-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-3-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-3-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-3-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-3-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL118_b9_ATAC_muscle.end1.fastq.gz L2-4-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-4-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL187_b14_ATAC_Skin.end1.fastq.gz L2-4-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-4-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-4-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-4-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL203_b14_RNA_Skin.end1.fastq.gz L2-4-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-4-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-4-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-4-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-4-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-4-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-4-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-4-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-4-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-4-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL270_b9_RNA_Muscle.end1.fastq.gz L2-4-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-4-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-4-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-4-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL118_b9_ATAC_muscle.end1.fastq.gz L2-4-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-4-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL187_b14_ATAC_Skin.end1.fastq.gz L2-4-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-4-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-4-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-4-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL203_b14_RNA_Skin.end1.fastq.gz L2-4-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-4-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-4-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-4-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-4-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-4-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-4-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-4-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-4-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-4-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL270_b9_RNA_Muscle.end1.fastq.gz L2-4-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-4-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-4-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-4-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL118_b9_ATAC_muscle.end1.fastq.gz L2-4-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-4-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL187_b14_ATAC_Skin.end1.fastq.gz L2-4-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-4-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-4-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-4-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL203_b14_RNA_Skin.end1.fastq.gz L2-4-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-4-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-4-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-4-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-4-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-4-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-4-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-4-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-4-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-4-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL270_b9_RNA_Muscle.end1.fastq.gz L2-4-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-4-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-4-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-4-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL118_b9_ATAC_muscle.end1.fastq.gz L2-4-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-4-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL187_b14_ATAC_Skin.end1.fastq.gz L2-4-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-4-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-4-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-4-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL203_b14_RNA_Skin.end1.fastq.gz L2-4-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-4-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-4-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-4-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-4-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-4-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-4-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-4-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-4-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-4-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL270_b9_RNA_Muscle.end1.fastq.gz L2-4-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-4-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-4-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-4-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL118_b9_ATAC_muscle.end1.fastq.gz L2-4-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-4-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL187_b14_ATAC_Skin.end1.fastq.gz L2-4-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-4-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-4-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-4-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL203_b14_RNA_Skin.end1.fastq.gz L2-4-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-4-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-4-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-4-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-4-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-4-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-4-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-4-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-4-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-4-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL270_b9_RNA_Muscle.end1.fastq.gz L2-4-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-4-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-4-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-4-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL118_b9_ATAC_muscle.end1.fastq.gz L2-4-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-4-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL187_b14_ATAC_Skin.end1.fastq.gz L2-4-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-4-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-4-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-4-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL203_b14_RNA_Skin.end1.fastq.gz L2-4-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-4-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-4-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-4-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-4-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-4-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-4-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-4-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-4-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-4-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL270_b9_RNA_Muscle.end1.fastq.gz L2-4-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-4-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-4-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-4-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL118_b9_ATAC_muscle.end1.fastq.gz L2-4-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-4-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL187_b14_ATAC_Skin.end1.fastq.gz L2-4-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-4-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-4-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-4-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL203_b14_RNA_Skin.end1.fastq.gz L2-4-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-4-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-4-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-4-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-4-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-4-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-4-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-4-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-4-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-4-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL270_b9_RNA_Muscle.end1.fastq.gz L2-4-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-4-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-4-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-4-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL118_b9_ATAC_muscle.end1.fastq.gz L2-4-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-4-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL187_b14_ATAC_Skin.end1.fastq.gz L2-4-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-4-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-4-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-4-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL203_b14_RNA_Skin.end1.fastq.gz L2-4-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-4-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-4-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-4-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-4-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-4-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-4-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-4-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-4-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-4-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL270_b9_RNA_Muscle.end1.fastq.gz L2-4-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-4-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-4-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-4-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL118_b9_ATAC_muscle.end1.fastq.gz L2-4-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-4-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL187_b14_ATAC_Skin.end1.fastq.gz L2-4-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-4-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-4-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-4-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL203_b14_RNA_Skin.end1.fastq.gz L2-4-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-4-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-4-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-4-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-4-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-4-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-4-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-4-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-4-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-4-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL270_b9_RNA_Muscle.end1.fastq.gz L2-4-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-4-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-4-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-4-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL118_b9_ATAC_muscle.end1.fastq.gz L2-4-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-4-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL187_b14_ATAC_Skin.end1.fastq.gz L2-4-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-4-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-4-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-4-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL203_b14_RNA_Skin.end1.fastq.gz L2-4-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-4-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-4-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-4-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-4-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-4-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-4-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-4-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-4-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-4-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL270_b9_RNA_Muscle.end1.fastq.gz L2-4-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-4-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-4-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-4-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-4-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL118_b9_ATAC_muscle.end1.fastq.gz L2-5-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-5-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL187_b14_ATAC_Skin.end1.fastq.gz L2-5-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-5-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-5-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-5-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL203_b14_RNA_Skin.end1.fastq.gz L2-5-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-5-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-5-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-5-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-5-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-5-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-5-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-5-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-5-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-5-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL270_b9_RNA_Muscle.end1.fastq.gz L2-5-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-5-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-5-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-5-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL118_b9_ATAC_muscle.end1.fastq.gz L2-5-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-5-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL187_b14_ATAC_Skin.end1.fastq.gz L2-5-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-5-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-5-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-5-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL203_b14_RNA_Skin.end1.fastq.gz L2-5-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-5-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-5-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-5-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-5-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-5-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-5-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-5-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-5-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-5-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL270_b9_RNA_Muscle.end1.fastq.gz L2-5-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-5-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-5-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-5-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL118_b9_ATAC_muscle.end1.fastq.gz L2-5-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-5-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL187_b14_ATAC_Skin.end1.fastq.gz L2-5-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-5-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-5-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-5-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL203_b14_RNA_Skin.end1.fastq.gz L2-5-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-5-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-5-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-5-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-5-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-5-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-5-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-5-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-5-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-5-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL270_b9_RNA_Muscle.end1.fastq.gz L2-5-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-5-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-5-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-5-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL118_b9_ATAC_muscle.end1.fastq.gz L2-5-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-5-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL187_b14_ATAC_Skin.end1.fastq.gz L2-5-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-5-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-5-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-5-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL203_b14_RNA_Skin.end1.fastq.gz L2-5-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-5-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-5-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-5-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-5-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-5-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-5-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-5-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-5-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-5-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL270_b9_RNA_Muscle.end1.fastq.gz L2-5-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-5-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-5-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-5-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL118_b9_ATAC_muscle.end1.fastq.gz L2-5-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-5-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL187_b14_ATAC_Skin.end1.fastq.gz L2-5-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-5-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-5-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-5-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL203_b14_RNA_Skin.end1.fastq.gz L2-5-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-5-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-5-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-5-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-5-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-5-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-5-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-5-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-5-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-5-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL270_b9_RNA_Muscle.end1.fastq.gz L2-5-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-5-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-5-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-5-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL118_b9_ATAC_muscle.end1.fastq.gz L2-5-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-5-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL187_b14_ATAC_Skin.end1.fastq.gz L2-5-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-5-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-5-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-5-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL203_b14_RNA_Skin.end1.fastq.gz L2-5-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-5-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-5-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-5-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-5-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-5-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-5-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-5-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-5-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-5-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL270_b9_RNA_Muscle.end1.fastq.gz L2-5-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-5-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-5-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-5-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL118_b9_ATAC_muscle.end1.fastq.gz L2-5-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-5-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL187_b14_ATAC_Skin.end1.fastq.gz L2-5-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-5-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-5-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-5-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL203_b14_RNA_Skin.end1.fastq.gz L2-5-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-5-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-5-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-5-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-5-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-5-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-5-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-5-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-5-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-5-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL270_b9_RNA_Muscle.end1.fastq.gz L2-5-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-5-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-5-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-5-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL118_b9_ATAC_muscle.end1.fastq.gz L2-5-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-5-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL187_b14_ATAC_Skin.end1.fastq.gz L2-5-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-5-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-5-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-5-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL203_b14_RNA_Skin.end1.fastq.gz L2-5-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-5-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-5-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-5-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-5-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-5-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-5-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-5-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-5-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-5-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL270_b9_RNA_Muscle.end1.fastq.gz L2-5-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-5-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-5-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-5-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL118_b9_ATAC_muscle.end1.fastq.gz L2-5-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-5-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL187_b14_ATAC_Skin.end1.fastq.gz L2-5-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-5-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-5-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-5-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL203_b14_RNA_Skin.end1.fastq.gz L2-5-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-5-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-5-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-5-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-5-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-5-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-5-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-5-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-5-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-5-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL270_b9_RNA_Muscle.end1.fastq.gz L2-5-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-5-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-5-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-5-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL118_b9_ATAC_muscle.end1.fastq.gz L2-5-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-5-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL187_b14_ATAC_Skin.end1.fastq.gz L2-5-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-5-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-5-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-5-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL203_b14_RNA_Skin.end1.fastq.gz L2-5-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-5-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-5-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-5-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-5-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-5-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-5-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-5-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-5-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-5-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL270_b9_RNA_Muscle.end1.fastq.gz L2-5-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-5-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-5-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-5-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-5-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL118_b9_ATAC_muscle.end1.fastq.gz L2-6-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-6-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL187_b14_ATAC_Skin.end1.fastq.gz L2-6-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-6-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-6-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-6-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL203_b14_RNA_Skin.end1.fastq.gz L2-6-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-6-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-6-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-6-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-6-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-6-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-6-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-6-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-6-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-6-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL270_b9_RNA_Muscle.end1.fastq.gz L2-6-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-6-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-6-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-6-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL118_b9_ATAC_muscle.end1.fastq.gz L2-6-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-6-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL187_b14_ATAC_Skin.end1.fastq.gz L2-6-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-6-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-6-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-6-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL203_b14_RNA_Skin.end1.fastq.gz L2-6-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-6-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-6-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-6-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-6-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-6-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-6-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-6-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-6-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-6-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL270_b9_RNA_Muscle.end1.fastq.gz L2-6-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-6-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-6-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-6-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL118_b9_ATAC_muscle.end1.fastq.gz L2-6-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-6-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL187_b14_ATAC_Skin.end1.fastq.gz L2-6-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-6-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-6-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-6-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL203_b14_RNA_Skin.end1.fastq.gz L2-6-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-6-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-6-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-6-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-6-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-6-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-6-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-6-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-6-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-6-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL270_b9_RNA_Muscle.end1.fastq.gz L2-6-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-6-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-6-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-6-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL118_b9_ATAC_muscle.end1.fastq.gz L2-6-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-6-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL187_b14_ATAC_Skin.end1.fastq.gz L2-6-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-6-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-6-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-6-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL203_b14_RNA_Skin.end1.fastq.gz L2-6-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-6-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-6-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-6-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-6-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-6-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-6-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-6-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-6-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-6-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL270_b9_RNA_Muscle.end1.fastq.gz L2-6-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-6-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-6-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-6-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL118_b9_ATAC_muscle.end1.fastq.gz L2-6-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-6-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL187_b14_ATAC_Skin.end1.fastq.gz L2-6-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-6-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-6-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-6-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL203_b14_RNA_Skin.end1.fastq.gz L2-6-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-6-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-6-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-6-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-6-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-6-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-6-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-6-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-6-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-6-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL270_b9_RNA_Muscle.end1.fastq.gz L2-6-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-6-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-6-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-6-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL118_b9_ATAC_muscle.end1.fastq.gz L2-6-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-6-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL187_b14_ATAC_Skin.end1.fastq.gz L2-6-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-6-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-6-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-6-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL203_b14_RNA_Skin.end1.fastq.gz L2-6-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-6-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-6-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-6-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-6-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-6-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-6-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-6-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-6-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-6-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL270_b9_RNA_Muscle.end1.fastq.gz L2-6-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-6-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-6-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-6-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL118_b9_ATAC_muscle.end1.fastq.gz L2-6-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-6-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL187_b14_ATAC_Skin.end1.fastq.gz L2-6-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-6-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-6-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-6-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL203_b14_RNA_Skin.end1.fastq.gz L2-6-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-6-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-6-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-6-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-6-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-6-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-6-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-6-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-6-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-6-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL270_b9_RNA_Muscle.end1.fastq.gz L2-6-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-6-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-6-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-6-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL118_b9_ATAC_muscle.end1.fastq.gz L2-6-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-6-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL187_b14_ATAC_Skin.end1.fastq.gz L2-6-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-6-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-6-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-6-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL203_b14_RNA_Skin.end1.fastq.gz L2-6-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-6-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-6-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-6-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-6-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-6-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-6-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-6-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-6-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-6-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL270_b9_RNA_Muscle.end1.fastq.gz L2-6-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-6-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-6-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-6-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL118_b9_ATAC_muscle.end1.fastq.gz L2-6-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-6-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL187_b14_ATAC_Skin.end1.fastq.gz L2-6-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-6-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-6-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-6-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL203_b14_RNA_Skin.end1.fastq.gz L2-6-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-6-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-6-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-6-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-6-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-6-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-6-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-6-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-6-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-6-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL270_b9_RNA_Muscle.end1.fastq.gz L2-6-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-6-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-6-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-6-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL118_b9_ATAC_muscle.end1.fastq.gz L2-6-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-6-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL187_b14_ATAC_Skin.end1.fastq.gz L2-6-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-6-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-6-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-6-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL203_b14_RNA_Skin.end1.fastq.gz L2-6-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-6-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-6-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-6-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-6-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-6-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-6-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-6-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-6-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-6-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL270_b9_RNA_Muscle.end1.fastq.gz L2-6-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-6-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-6-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-6-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-6-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL118_b9_ATAC_muscle.end1.fastq.gz L2-7-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-7-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL187_b14_ATAC_Skin.end1.fastq.gz L2-7-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-7-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-7-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-7-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL203_b14_RNA_Skin.end1.fastq.gz L2-7-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-7-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-7-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-7-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-7-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-7-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-7-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-7-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-7-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-7-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL270_b9_RNA_Muscle.end1.fastq.gz L2-7-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-7-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-7-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-7-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL118_b9_ATAC_muscle.end1.fastq.gz L2-7-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-7-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL187_b14_ATAC_Skin.end1.fastq.gz L2-7-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-7-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-7-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-7-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL203_b14_RNA_Skin.end1.fastq.gz L2-7-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-7-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-7-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-7-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-7-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-7-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-7-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-7-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-7-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-7-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL270_b9_RNA_Muscle.end1.fastq.gz L2-7-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-7-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-7-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-7-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL118_b9_ATAC_muscle.end1.fastq.gz L2-7-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-7-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL187_b14_ATAC_Skin.end1.fastq.gz L2-7-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-7-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-7-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-7-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL203_b14_RNA_Skin.end1.fastq.gz L2-7-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-7-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-7-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-7-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-7-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-7-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-7-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-7-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-7-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-7-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL270_b9_RNA_Muscle.end1.fastq.gz L2-7-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-7-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-7-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-7-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL118_b9_ATAC_muscle.end1.fastq.gz L2-7-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-7-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL187_b14_ATAC_Skin.end1.fastq.gz L2-7-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-7-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-7-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-7-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL203_b14_RNA_Skin.end1.fastq.gz L2-7-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-7-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-7-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-7-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-7-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-7-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-7-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-7-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-7-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-7-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL270_b9_RNA_Muscle.end1.fastq.gz L2-7-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-7-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-7-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-7-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL118_b9_ATAC_muscle.end1.fastq.gz L2-7-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-7-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL187_b14_ATAC_Skin.end1.fastq.gz L2-7-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-7-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-7-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-7-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL203_b14_RNA_Skin.end1.fastq.gz L2-7-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-7-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-7-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-7-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-7-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-7-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-7-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-7-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-7-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-7-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL270_b9_RNA_Muscle.end1.fastq.gz L2-7-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-7-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-7-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-7-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL118_b9_ATAC_muscle.end1.fastq.gz L2-7-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-7-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL187_b14_ATAC_Skin.end1.fastq.gz L2-7-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-7-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-7-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-7-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL203_b14_RNA_Skin.end1.fastq.gz L2-7-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-7-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-7-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-7-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-7-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-7-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-7-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-7-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-7-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-7-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL270_b9_RNA_Muscle.end1.fastq.gz L2-7-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-7-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-7-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-7-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL118_b9_ATAC_muscle.end1.fastq.gz L2-7-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-7-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL187_b14_ATAC_Skin.end1.fastq.gz L2-7-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-7-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-7-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-7-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL203_b14_RNA_Skin.end1.fastq.gz L2-7-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-7-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-7-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-7-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-7-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-7-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-7-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-7-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-7-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-7-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL270_b9_RNA_Muscle.end1.fastq.gz L2-7-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-7-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-7-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-7-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL118_b9_ATAC_muscle.end1.fastq.gz L2-7-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-7-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL187_b14_ATAC_Skin.end1.fastq.gz L2-7-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-7-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-7-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-7-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL203_b14_RNA_Skin.end1.fastq.gz L2-7-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-7-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-7-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-7-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-7-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-7-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-7-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-7-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-7-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-7-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL270_b9_RNA_Muscle.end1.fastq.gz L2-7-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-7-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-7-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-7-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL118_b9_ATAC_muscle.end1.fastq.gz L2-7-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L2-7-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL187_b14_ATAC_Skin.end1.fastq.gz L2-7-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L2-7-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L2-7-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L2-7-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL203_b14_RNA_Skin.end1.fastq.gz L2-7-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L2-7-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L2-7-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L2-7-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L2-7-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L2-7-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L2-7-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L2-7-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L2-7-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L2-7-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L2-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L2-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L2-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL270_b9_RNA_Muscle.end1.fastq.gz L2-7-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L2-7-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L2-7-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L2-7-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L2-7-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL118_b9_ATAC_muscle.end1.fastq.gz L3-0-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-0-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL187_b14_ATAC_Skin.end1.fastq.gz L3-0-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-0-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-0-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-0-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL203_b14_RNA_Skin.end1.fastq.gz L3-0-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-0-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-0-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-0-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-0-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-0-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-0-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-0-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-0-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-0-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL270_b9_RNA_Muscle.end1.fastq.gz L3-0-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-0-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-0-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-0-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL118_b9_ATAC_muscle.end1.fastq.gz L3-0-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-0-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL187_b14_ATAC_Skin.end1.fastq.gz L3-0-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-0-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-0-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-0-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL203_b14_RNA_Skin.end1.fastq.gz L3-0-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-0-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-0-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-0-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-0-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-0-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-0-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-0-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-0-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-0-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL270_b9_RNA_Muscle.end1.fastq.gz L3-0-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-0-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-0-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-0-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL118_b9_ATAC_muscle.end1.fastq.gz L3-0-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-0-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL187_b14_ATAC_Skin.end1.fastq.gz L3-0-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-0-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-0-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-0-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL203_b14_RNA_Skin.end1.fastq.gz L3-0-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-0-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-0-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-0-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-0-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-0-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-0-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-0-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-0-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-0-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL270_b9_RNA_Muscle.end1.fastq.gz L3-0-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-0-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-0-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-0-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL118_b9_ATAC_muscle.end1.fastq.gz L3-0-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-0-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL187_b14_ATAC_Skin.end1.fastq.gz L3-0-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-0-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-0-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-0-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL203_b14_RNA_Skin.end1.fastq.gz L3-0-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-0-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-0-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-0-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-0-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-0-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-0-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-0-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-0-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-0-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL270_b9_RNA_Muscle.end1.fastq.gz L3-0-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-0-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-0-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-0-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL118_b9_ATAC_muscle.end1.fastq.gz L3-0-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-0-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL187_b14_ATAC_Skin.end1.fastq.gz L3-0-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-0-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-0-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-0-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL203_b14_RNA_Skin.end1.fastq.gz L3-0-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-0-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-0-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-0-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-0-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-0-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-0-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-0-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-0-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-0-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL270_b9_RNA_Muscle.end1.fastq.gz L3-0-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-0-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-0-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-0-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL118_b9_ATAC_muscle.end1.fastq.gz L3-0-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-0-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL187_b14_ATAC_Skin.end1.fastq.gz L3-0-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-0-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-0-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-0-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL203_b14_RNA_Skin.end1.fastq.gz L3-0-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-0-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-0-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-0-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-0-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-0-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-0-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-0-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-0-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-0-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL270_b9_RNA_Muscle.end1.fastq.gz L3-0-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-0-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-0-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-0-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL118_b9_ATAC_muscle.end1.fastq.gz L3-0-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-0-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL187_b14_ATAC_Skin.end1.fastq.gz L3-0-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-0-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-0-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-0-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL203_b14_RNA_Skin.end1.fastq.gz L3-0-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-0-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-0-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-0-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-0-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-0-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-0-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-0-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-0-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-0-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL270_b9_RNA_Muscle.end1.fastq.gz L3-0-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-0-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-0-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-0-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL118_b9_ATAC_muscle.end1.fastq.gz L3-0-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-0-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL187_b14_ATAC_Skin.end1.fastq.gz L3-0-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-0-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-0-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-0-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL203_b14_RNA_Skin.end1.fastq.gz L3-0-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-0-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-0-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-0-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-0-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-0-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-0-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-0-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-0-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-0-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL270_b9_RNA_Muscle.end1.fastq.gz L3-0-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-0-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-0-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-0-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL118_b9_ATAC_muscle.end1.fastq.gz L3-0-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-0-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL187_b14_ATAC_Skin.end1.fastq.gz L3-0-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-0-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-0-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-0-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL203_b14_RNA_Skin.end1.fastq.gz L3-0-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-0-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-0-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-0-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-0-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-0-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-0-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-0-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-0-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-0-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL270_b9_RNA_Muscle.end1.fastq.gz L3-0-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-0-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-0-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-0-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-0-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL118_b9_ATAC_muscle.end1.fastq.gz L3-1-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-1-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL187_b14_ATAC_Skin.end1.fastq.gz L3-1-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-1-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-1-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-1-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL203_b14_RNA_Skin.end1.fastq.gz L3-1-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-1-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-1-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-1-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-1-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-1-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-1-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-1-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-1-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-1-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL270_b9_RNA_Muscle.end1.fastq.gz L3-1-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-1-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-1-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-1-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL118_b9_ATAC_muscle.end1.fastq.gz L3-1-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-1-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL187_b14_ATAC_Skin.end1.fastq.gz L3-1-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-1-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-1-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-1-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL203_b14_RNA_Skin.end1.fastq.gz L3-1-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-1-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-1-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-1-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-1-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-1-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-1-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-1-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-1-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-1-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL270_b9_RNA_Muscle.end1.fastq.gz L3-1-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-1-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-1-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-1-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL118_b9_ATAC_muscle.end1.fastq.gz L3-1-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-1-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL187_b14_ATAC_Skin.end1.fastq.gz L3-1-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-1-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-1-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-1-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL203_b14_RNA_Skin.end1.fastq.gz L3-1-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-1-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-1-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-1-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-1-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-1-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-1-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-1-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-1-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-1-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL270_b9_RNA_Muscle.end1.fastq.gz L3-1-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-1-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-1-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-1-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL118_b9_ATAC_muscle.end1.fastq.gz L3-1-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-1-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL187_b14_ATAC_Skin.end1.fastq.gz L3-1-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-1-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-1-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-1-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL203_b14_RNA_Skin.end1.fastq.gz L3-1-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-1-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-1-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-1-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-1-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-1-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-1-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-1-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-1-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-1-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL270_b9_RNA_Muscle.end1.fastq.gz L3-1-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-1-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-1-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-1-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL118_b9_ATAC_muscle.end1.fastq.gz L3-1-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-1-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL187_b14_ATAC_Skin.end1.fastq.gz L3-1-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-1-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-1-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-1-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL203_b14_RNA_Skin.end1.fastq.gz L3-1-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-1-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-1-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-1-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-1-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-1-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-1-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-1-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-1-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-1-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL270_b9_RNA_Muscle.end1.fastq.gz L3-1-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-1-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-1-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-1-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL118_b9_ATAC_muscle.end1.fastq.gz L3-1-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-1-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL187_b14_ATAC_Skin.end1.fastq.gz L3-1-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-1-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-1-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-1-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL203_b14_RNA_Skin.end1.fastq.gz L3-1-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-1-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-1-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-1-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-1-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-1-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-1-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-1-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-1-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-1-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL270_b9_RNA_Muscle.end1.fastq.gz L3-1-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-1-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-1-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-1-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL118_b9_ATAC_muscle.end1.fastq.gz L3-1-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-1-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL187_b14_ATAC_Skin.end1.fastq.gz L3-1-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-1-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-1-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-1-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL203_b14_RNA_Skin.end1.fastq.gz L3-1-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-1-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-1-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-1-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-1-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-1-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-1-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-1-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-1-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-1-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL270_b9_RNA_Muscle.end1.fastq.gz L3-1-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-1-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-1-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-1-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL118_b9_ATAC_muscle.end1.fastq.gz L3-1-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-1-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL187_b14_ATAC_Skin.end1.fastq.gz L3-1-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-1-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-1-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-1-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL203_b14_RNA_Skin.end1.fastq.gz L3-1-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-1-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-1-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-1-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-1-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-1-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-1-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-1-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-1-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-1-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL270_b9_RNA_Muscle.end1.fastq.gz L3-1-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-1-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-1-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-1-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL118_b9_ATAC_muscle.end1.fastq.gz L3-1-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-1-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL187_b14_ATAC_Skin.end1.fastq.gz L3-1-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-1-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-1-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-1-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL203_b14_RNA_Skin.end1.fastq.gz L3-1-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-1-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-1-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-1-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-1-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-1-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-1-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-1-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-1-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-1-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL270_b9_RNA_Muscle.end1.fastq.gz L3-1-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-1-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-1-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-1-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL118_b9_ATAC_muscle.end1.fastq.gz L3-1-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-1-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL187_b14_ATAC_Skin.end1.fastq.gz L3-1-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-1-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-1-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-1-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL203_b14_RNA_Skin.end1.fastq.gz L3-1-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-1-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-1-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-1-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-1-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-1-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-1-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-1-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-1-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-1-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL270_b9_RNA_Muscle.end1.fastq.gz L3-1-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-1-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-1-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-1-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-1-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL118_b9_ATAC_muscle.end1.fastq.gz L3-2-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-2-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL187_b14_ATAC_Skin.end1.fastq.gz L3-2-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-2-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-2-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-2-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL203_b14_RNA_Skin.end1.fastq.gz L3-2-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-2-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-2-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-2-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-2-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-2-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-2-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-2-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-2-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-2-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL270_b9_RNA_Muscle.end1.fastq.gz L3-2-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-2-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-2-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-2-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL118_b9_ATAC_muscle.end1.fastq.gz L3-2-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-2-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL187_b14_ATAC_Skin.end1.fastq.gz L3-2-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-2-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-2-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-2-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL203_b14_RNA_Skin.end1.fastq.gz L3-2-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-2-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-2-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-2-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-2-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-2-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-2-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-2-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-2-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-2-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL270_b9_RNA_Muscle.end1.fastq.gz L3-2-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-2-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-2-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-2-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL118_b9_ATAC_muscle.end1.fastq.gz L3-2-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-2-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL187_b14_ATAC_Skin.end1.fastq.gz L3-2-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-2-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-2-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-2-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL203_b14_RNA_Skin.end1.fastq.gz L3-2-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-2-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-2-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-2-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-2-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-2-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-2-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-2-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-2-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-2-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL270_b9_RNA_Muscle.end1.fastq.gz L3-2-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-2-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-2-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-2-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL118_b9_ATAC_muscle.end1.fastq.gz L3-2-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-2-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL187_b14_ATAC_Skin.end1.fastq.gz L3-2-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-2-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-2-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-2-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL203_b14_RNA_Skin.end1.fastq.gz L3-2-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-2-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-2-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-2-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-2-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-2-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-2-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-2-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-2-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-2-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL270_b9_RNA_Muscle.end1.fastq.gz L3-2-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-2-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-2-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-2-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL118_b9_ATAC_muscle.end1.fastq.gz L3-2-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-2-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL187_b14_ATAC_Skin.end1.fastq.gz L3-2-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-2-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-2-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-2-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL203_b14_RNA_Skin.end1.fastq.gz L3-2-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-2-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-2-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-2-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-2-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-2-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-2-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-2-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-2-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-2-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL270_b9_RNA_Muscle.end1.fastq.gz L3-2-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-2-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-2-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-2-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL118_b9_ATAC_muscle.end1.fastq.gz L3-2-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-2-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL187_b14_ATAC_Skin.end1.fastq.gz L3-2-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-2-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-2-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-2-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL203_b14_RNA_Skin.end1.fastq.gz L3-2-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-2-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-2-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-2-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-2-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-2-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-2-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-2-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-2-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-2-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL270_b9_RNA_Muscle.end1.fastq.gz L3-2-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-2-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-2-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-2-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL118_b9_ATAC_muscle.end1.fastq.gz L3-2-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-2-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL187_b14_ATAC_Skin.end1.fastq.gz L3-2-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-2-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-2-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-2-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL203_b14_RNA_Skin.end1.fastq.gz L3-2-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-2-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-2-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-2-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-2-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-2-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-2-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-2-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-2-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-2-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL270_b9_RNA_Muscle.end1.fastq.gz L3-2-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-2-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-2-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-2-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL118_b9_ATAC_muscle.end1.fastq.gz L3-2-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-2-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL187_b14_ATAC_Skin.end1.fastq.gz L3-2-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-2-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-2-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-2-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL203_b14_RNA_Skin.end1.fastq.gz L3-2-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-2-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-2-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-2-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-2-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-2-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-2-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-2-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-2-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-2-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL270_b9_RNA_Muscle.end1.fastq.gz L3-2-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-2-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-2-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-2-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL118_b9_ATAC_muscle.end1.fastq.gz L3-2-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-2-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL187_b14_ATAC_Skin.end1.fastq.gz L3-2-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-2-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-2-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-2-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL203_b14_RNA_Skin.end1.fastq.gz L3-2-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-2-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-2-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-2-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-2-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-2-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-2-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-2-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-2-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-2-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL270_b9_RNA_Muscle.end1.fastq.gz L3-2-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-2-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-2-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-2-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL118_b9_ATAC_muscle.end1.fastq.gz L3-2-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-2-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL187_b14_ATAC_Skin.end1.fastq.gz L3-2-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-2-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-2-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-2-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL203_b14_RNA_Skin.end1.fastq.gz L3-2-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-2-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-2-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-2-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-2-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-2-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-2-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-2-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-2-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-2-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL270_b9_RNA_Muscle.end1.fastq.gz L3-2-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-2-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-2-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-2-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-2-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL118_b9_ATAC_muscle.end1.fastq.gz L3-3-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-3-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL187_b14_ATAC_Skin.end1.fastq.gz L3-3-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-3-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-3-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-3-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL203_b14_RNA_Skin.end1.fastq.gz L3-3-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-3-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-3-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-3-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-3-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-3-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-3-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-3-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-3-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-3-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL270_b9_RNA_Muscle.end1.fastq.gz L3-3-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-3-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-3-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-3-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL118_b9_ATAC_muscle.end1.fastq.gz L3-3-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-3-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL187_b14_ATAC_Skin.end1.fastq.gz L3-3-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-3-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-3-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-3-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL203_b14_RNA_Skin.end1.fastq.gz L3-3-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-3-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-3-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-3-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-3-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-3-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-3-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-3-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-3-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-3-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL270_b9_RNA_Muscle.end1.fastq.gz L3-3-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-3-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-3-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-3-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL118_b9_ATAC_muscle.end1.fastq.gz L3-3-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-3-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL187_b14_ATAC_Skin.end1.fastq.gz L3-3-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-3-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-3-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-3-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL203_b14_RNA_Skin.end1.fastq.gz L3-3-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-3-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-3-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-3-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-3-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-3-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-3-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-3-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-3-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-3-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL270_b9_RNA_Muscle.end1.fastq.gz L3-3-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-3-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-3-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-3-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL118_b9_ATAC_muscle.end1.fastq.gz L3-3-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-3-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL187_b14_ATAC_Skin.end1.fastq.gz L3-3-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-3-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-3-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-3-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL203_b14_RNA_Skin.end1.fastq.gz L3-3-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-3-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-3-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-3-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-3-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-3-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-3-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-3-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-3-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-3-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL270_b9_RNA_Muscle.end1.fastq.gz L3-3-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-3-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-3-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-3-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL118_b9_ATAC_muscle.end1.fastq.gz L3-3-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-3-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL187_b14_ATAC_Skin.end1.fastq.gz L3-3-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-3-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-3-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-3-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL203_b14_RNA_Skin.end1.fastq.gz L3-3-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-3-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-3-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-3-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-3-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-3-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-3-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-3-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-3-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-3-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL270_b9_RNA_Muscle.end1.fastq.gz L3-3-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-3-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-3-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-3-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL118_b9_ATAC_muscle.end1.fastq.gz L3-3-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-3-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL187_b14_ATAC_Skin.end1.fastq.gz L3-3-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-3-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-3-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-3-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL203_b14_RNA_Skin.end1.fastq.gz L3-3-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-3-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-3-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-3-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-3-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-3-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-3-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-3-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-3-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-3-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL270_b9_RNA_Muscle.end1.fastq.gz L3-3-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-3-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-3-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-3-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL118_b9_ATAC_muscle.end1.fastq.gz L3-3-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-3-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL187_b14_ATAC_Skin.end1.fastq.gz L3-3-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-3-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-3-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-3-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL203_b14_RNA_Skin.end1.fastq.gz L3-3-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-3-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-3-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-3-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-3-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-3-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-3-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-3-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-3-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-3-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL270_b9_RNA_Muscle.end1.fastq.gz L3-3-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-3-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-3-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-3-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL118_b9_ATAC_muscle.end1.fastq.gz L3-3-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-3-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL187_b14_ATAC_Skin.end1.fastq.gz L3-3-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-3-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-3-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-3-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL203_b14_RNA_Skin.end1.fastq.gz L3-3-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-3-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-3-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-3-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-3-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-3-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-3-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-3-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-3-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-3-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL270_b9_RNA_Muscle.end1.fastq.gz L3-3-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-3-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-3-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-3-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL118_b9_ATAC_muscle.end1.fastq.gz L3-3-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-3-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL187_b14_ATAC_Skin.end1.fastq.gz L3-3-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-3-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-3-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-3-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL203_b14_RNA_Skin.end1.fastq.gz L3-3-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-3-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-3-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-3-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-3-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-3-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-3-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-3-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-3-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-3-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL270_b9_RNA_Muscle.end1.fastq.gz L3-3-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-3-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-3-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-3-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL118_b9_ATAC_muscle.end1.fastq.gz L3-3-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-3-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL187_b14_ATAC_Skin.end1.fastq.gz L3-3-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-3-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-3-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-3-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL203_b14_RNA_Skin.end1.fastq.gz L3-3-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-3-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-3-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-3-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-3-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-3-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-3-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-3-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-3-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-3-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL270_b9_RNA_Muscle.end1.fastq.gz L3-3-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-3-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-3-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-3-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-3-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL118_b9_ATAC_muscle.end1.fastq.gz L3-4-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-4-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL187_b14_ATAC_Skin.end1.fastq.gz L3-4-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-4-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-4-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-4-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL203_b14_RNA_Skin.end1.fastq.gz L3-4-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-4-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-4-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-4-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-4-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-4-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-4-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-4-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-4-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-4-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL270_b9_RNA_Muscle.end1.fastq.gz L3-4-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-4-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-4-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-4-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL118_b9_ATAC_muscle.end1.fastq.gz L3-4-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-4-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL187_b14_ATAC_Skin.end1.fastq.gz L3-4-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-4-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-4-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-4-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL203_b14_RNA_Skin.end1.fastq.gz L3-4-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-4-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-4-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-4-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-4-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-4-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-4-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-4-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-4-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-4-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL270_b9_RNA_Muscle.end1.fastq.gz L3-4-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-4-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-4-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-4-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL118_b9_ATAC_muscle.end1.fastq.gz L3-4-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-4-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL187_b14_ATAC_Skin.end1.fastq.gz L3-4-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-4-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-4-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-4-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL203_b14_RNA_Skin.end1.fastq.gz L3-4-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-4-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-4-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-4-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-4-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-4-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-4-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-4-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-4-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-4-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL270_b9_RNA_Muscle.end1.fastq.gz L3-4-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-4-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-4-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-4-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL118_b9_ATAC_muscle.end1.fastq.gz L3-4-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-4-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL187_b14_ATAC_Skin.end1.fastq.gz L3-4-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-4-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-4-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-4-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL203_b14_RNA_Skin.end1.fastq.gz L3-4-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-4-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-4-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-4-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-4-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-4-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-4-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-4-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-4-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-4-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL270_b9_RNA_Muscle.end1.fastq.gz L3-4-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-4-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-4-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-4-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL118_b9_ATAC_muscle.end1.fastq.gz L3-4-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-4-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL187_b14_ATAC_Skin.end1.fastq.gz L3-4-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-4-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-4-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-4-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL203_b14_RNA_Skin.end1.fastq.gz L3-4-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-4-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-4-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-4-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-4-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-4-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-4-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-4-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-4-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-4-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL270_b9_RNA_Muscle.end1.fastq.gz L3-4-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-4-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-4-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-4-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL118_b9_ATAC_muscle.end1.fastq.gz L3-4-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-4-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL187_b14_ATAC_Skin.end1.fastq.gz L3-4-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-4-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-4-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-4-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL203_b14_RNA_Skin.end1.fastq.gz L3-4-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-4-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-4-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-4-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-4-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-4-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-4-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-4-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-4-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-4-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL270_b9_RNA_Muscle.end1.fastq.gz L3-4-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-4-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-4-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-4-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL118_b9_ATAC_muscle.end1.fastq.gz L3-4-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-4-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL187_b14_ATAC_Skin.end1.fastq.gz L3-4-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-4-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-4-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-4-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL203_b14_RNA_Skin.end1.fastq.gz L3-4-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-4-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-4-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-4-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-4-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-4-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-4-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-4-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-4-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-4-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL270_b9_RNA_Muscle.end1.fastq.gz L3-4-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-4-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-4-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-4-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL118_b9_ATAC_muscle.end1.fastq.gz L3-4-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-4-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL187_b14_ATAC_Skin.end1.fastq.gz L3-4-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-4-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-4-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-4-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL203_b14_RNA_Skin.end1.fastq.gz L3-4-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-4-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-4-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-4-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-4-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-4-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-4-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-4-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-4-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-4-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL270_b9_RNA_Muscle.end1.fastq.gz L3-4-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-4-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-4-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-4-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL118_b9_ATAC_muscle.end1.fastq.gz L3-4-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-4-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL187_b14_ATAC_Skin.end1.fastq.gz L3-4-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-4-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-4-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-4-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL203_b14_RNA_Skin.end1.fastq.gz L3-4-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-4-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-4-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-4-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-4-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-4-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-4-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-4-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-4-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-4-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL270_b9_RNA_Muscle.end1.fastq.gz L3-4-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-4-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-4-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-4-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL118_b9_ATAC_muscle.end1.fastq.gz L3-4-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-4-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL187_b14_ATAC_Skin.end1.fastq.gz L3-4-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-4-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-4-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-4-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL203_b14_RNA_Skin.end1.fastq.gz L3-4-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-4-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-4-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-4-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-4-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-4-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-4-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-4-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-4-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-4-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL270_b9_RNA_Muscle.end1.fastq.gz L3-4-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-4-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-4-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-4-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-4-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL118_b9_ATAC_muscle.end1.fastq.gz L3-5-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-5-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL187_b14_ATAC_Skin.end1.fastq.gz L3-5-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-5-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-5-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-5-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL203_b14_RNA_Skin.end1.fastq.gz L3-5-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-5-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-5-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-5-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-5-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-5-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-5-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-5-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-5-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-5-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL270_b9_RNA_Muscle.end1.fastq.gz L3-5-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-5-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-5-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-5-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL118_b9_ATAC_muscle.end1.fastq.gz L3-5-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-5-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL187_b14_ATAC_Skin.end1.fastq.gz L3-5-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-5-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-5-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-5-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL203_b14_RNA_Skin.end1.fastq.gz L3-5-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-5-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-5-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-5-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-5-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-5-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-5-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-5-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-5-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-5-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL270_b9_RNA_Muscle.end1.fastq.gz L3-5-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-5-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-5-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-5-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL118_b9_ATAC_muscle.end1.fastq.gz L3-5-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-5-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL187_b14_ATAC_Skin.end1.fastq.gz L3-5-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-5-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-5-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-5-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL203_b14_RNA_Skin.end1.fastq.gz L3-5-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-5-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-5-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-5-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-5-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-5-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-5-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-5-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-5-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-5-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL270_b9_RNA_Muscle.end1.fastq.gz L3-5-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-5-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-5-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-5-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL118_b9_ATAC_muscle.end1.fastq.gz L3-5-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-5-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL187_b14_ATAC_Skin.end1.fastq.gz L3-5-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-5-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-5-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-5-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL203_b14_RNA_Skin.end1.fastq.gz L3-5-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-5-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-5-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-5-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-5-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-5-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-5-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-5-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-5-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-5-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL270_b9_RNA_Muscle.end1.fastq.gz L3-5-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-5-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-5-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-5-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL118_b9_ATAC_muscle.end1.fastq.gz L3-5-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-5-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL187_b14_ATAC_Skin.end1.fastq.gz L3-5-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-5-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-5-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-5-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL203_b14_RNA_Skin.end1.fastq.gz L3-5-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-5-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-5-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-5-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-5-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-5-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-5-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-5-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-5-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-5-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL270_b9_RNA_Muscle.end1.fastq.gz L3-5-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-5-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-5-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-5-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL118_b9_ATAC_muscle.end1.fastq.gz L3-5-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-5-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL187_b14_ATAC_Skin.end1.fastq.gz L3-5-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-5-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-5-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-5-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL203_b14_RNA_Skin.end1.fastq.gz L3-5-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-5-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-5-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-5-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-5-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-5-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-5-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-5-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-5-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-5-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL270_b9_RNA_Muscle.end1.fastq.gz L3-5-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-5-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-5-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-5-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL118_b9_ATAC_muscle.end1.fastq.gz L3-5-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-5-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL187_b14_ATAC_Skin.end1.fastq.gz L3-5-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-5-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-5-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-5-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL203_b14_RNA_Skin.end1.fastq.gz L3-5-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-5-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-5-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-5-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-5-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-5-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-5-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-5-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-5-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-5-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL270_b9_RNA_Muscle.end1.fastq.gz L3-5-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-5-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-5-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-5-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL118_b9_ATAC_muscle.end1.fastq.gz L3-5-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-5-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL187_b14_ATAC_Skin.end1.fastq.gz L3-5-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-5-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-5-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-5-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL203_b14_RNA_Skin.end1.fastq.gz L3-5-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-5-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-5-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-5-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-5-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-5-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-5-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-5-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-5-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-5-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL270_b9_RNA_Muscle.end1.fastq.gz L3-5-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-5-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-5-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-5-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL118_b9_ATAC_muscle.end1.fastq.gz L3-5-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-5-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL187_b14_ATAC_Skin.end1.fastq.gz L3-5-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-5-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-5-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-5-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL203_b14_RNA_Skin.end1.fastq.gz L3-5-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-5-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-5-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-5-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-5-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-5-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-5-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-5-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-5-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-5-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL270_b9_RNA_Muscle.end1.fastq.gz L3-5-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-5-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-5-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-5-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL118_b9_ATAC_muscle.end1.fastq.gz L3-5-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-5-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL187_b14_ATAC_Skin.end1.fastq.gz L3-5-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-5-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-5-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-5-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL203_b14_RNA_Skin.end1.fastq.gz L3-5-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-5-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-5-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-5-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-5-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-5-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-5-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-5-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-5-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-5-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL270_b9_RNA_Muscle.end1.fastq.gz L3-5-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-5-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-5-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-5-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-5-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL118_b9_ATAC_muscle.end1.fastq.gz L3-6-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-6-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL187_b14_ATAC_Skin.end1.fastq.gz L3-6-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-6-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-6-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-6-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL203_b14_RNA_Skin.end1.fastq.gz L3-6-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-6-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-6-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-6-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-6-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-6-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-6-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-6-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-6-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-6-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL270_b9_RNA_Muscle.end1.fastq.gz L3-6-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-6-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-6-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-6-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL118_b9_ATAC_muscle.end1.fastq.gz L3-6-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-6-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL187_b14_ATAC_Skin.end1.fastq.gz L3-6-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-6-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-6-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-6-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL203_b14_RNA_Skin.end1.fastq.gz L3-6-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-6-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-6-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-6-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-6-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-6-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-6-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-6-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-6-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-6-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL270_b9_RNA_Muscle.end1.fastq.gz L3-6-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-6-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-6-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-6-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL118_b9_ATAC_muscle.end1.fastq.gz L3-6-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-6-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL187_b14_ATAC_Skin.end1.fastq.gz L3-6-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-6-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-6-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-6-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL203_b14_RNA_Skin.end1.fastq.gz L3-6-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-6-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-6-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-6-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-6-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-6-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-6-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-6-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-6-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-6-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL270_b9_RNA_Muscle.end1.fastq.gz L3-6-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-6-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-6-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-6-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL118_b9_ATAC_muscle.end1.fastq.gz L3-6-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-6-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL187_b14_ATAC_Skin.end1.fastq.gz L3-6-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-6-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-6-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-6-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL203_b14_RNA_Skin.end1.fastq.gz L3-6-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-6-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-6-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-6-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-6-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-6-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-6-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-6-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-6-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-6-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL270_b9_RNA_Muscle.end1.fastq.gz L3-6-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-6-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-6-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-6-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL118_b9_ATAC_muscle.end1.fastq.gz L3-6-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-6-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL187_b14_ATAC_Skin.end1.fastq.gz L3-6-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-6-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-6-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-6-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL203_b14_RNA_Skin.end1.fastq.gz L3-6-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-6-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-6-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-6-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-6-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-6-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-6-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-6-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-6-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-6-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL270_b9_RNA_Muscle.end1.fastq.gz L3-6-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-6-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-6-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-6-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL118_b9_ATAC_muscle.end1.fastq.gz L3-6-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-6-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL187_b14_ATAC_Skin.end1.fastq.gz L3-6-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-6-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-6-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-6-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL203_b14_RNA_Skin.end1.fastq.gz L3-6-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-6-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-6-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-6-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-6-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-6-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-6-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-6-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-6-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-6-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL270_b9_RNA_Muscle.end1.fastq.gz L3-6-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-6-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-6-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-6-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL118_b9_ATAC_muscle.end1.fastq.gz L3-6-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-6-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL187_b14_ATAC_Skin.end1.fastq.gz L3-6-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-6-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-6-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-6-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL203_b14_RNA_Skin.end1.fastq.gz L3-6-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-6-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-6-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-6-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-6-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-6-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-6-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-6-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-6-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-6-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL270_b9_RNA_Muscle.end1.fastq.gz L3-6-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-6-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-6-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-6-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL118_b9_ATAC_muscle.end1.fastq.gz L3-6-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-6-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL187_b14_ATAC_Skin.end1.fastq.gz L3-6-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-6-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-6-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-6-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL203_b14_RNA_Skin.end1.fastq.gz L3-6-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-6-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-6-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-6-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-6-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-6-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-6-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-6-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-6-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-6-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL270_b9_RNA_Muscle.end1.fastq.gz L3-6-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-6-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-6-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-6-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL118_b9_ATAC_muscle.end1.fastq.gz L3-6-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-6-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL187_b14_ATAC_Skin.end1.fastq.gz L3-6-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-6-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-6-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-6-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL203_b14_RNA_Skin.end1.fastq.gz L3-6-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-6-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-6-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-6-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-6-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-6-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-6-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-6-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-6-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-6-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL270_b9_RNA_Muscle.end1.fastq.gz L3-6-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-6-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-6-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-6-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL118_b9_ATAC_muscle.end1.fastq.gz L3-6-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-6-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL187_b14_ATAC_Skin.end1.fastq.gz L3-6-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-6-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-6-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-6-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL203_b14_RNA_Skin.end1.fastq.gz L3-6-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-6-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-6-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-6-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-6-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-6-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-6-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-6-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-6-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-6-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL270_b9_RNA_Muscle.end1.fastq.gz L3-6-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-6-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-6-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-6-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-6-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL118_b9_ATAC_muscle.end1.fastq.gz L3-7-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-7-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL187_b14_ATAC_Skin.end1.fastq.gz L3-7-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-7-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-7-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-7-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL203_b14_RNA_Skin.end1.fastq.gz L3-7-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-7-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-7-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-7-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-7-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-7-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-7-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-7-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-7-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-7-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL270_b9_RNA_Muscle.end1.fastq.gz L3-7-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-7-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-7-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-7-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL118_b9_ATAC_muscle.end1.fastq.gz L3-7-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-7-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL187_b14_ATAC_Skin.end1.fastq.gz L3-7-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-7-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-7-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-7-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL203_b14_RNA_Skin.end1.fastq.gz L3-7-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-7-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-7-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-7-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-7-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-7-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-7-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-7-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-7-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-7-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL270_b9_RNA_Muscle.end1.fastq.gz L3-7-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-7-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-7-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-7-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL118_b9_ATAC_muscle.end1.fastq.gz L3-7-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-7-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL187_b14_ATAC_Skin.end1.fastq.gz L3-7-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-7-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-7-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-7-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL203_b14_RNA_Skin.end1.fastq.gz L3-7-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-7-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-7-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-7-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-7-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-7-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-7-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-7-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-7-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-7-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL270_b9_RNA_Muscle.end1.fastq.gz L3-7-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-7-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-7-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-7-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL118_b9_ATAC_muscle.end1.fastq.gz L3-7-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-7-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL187_b14_ATAC_Skin.end1.fastq.gz L3-7-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-7-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-7-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-7-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL203_b14_RNA_Skin.end1.fastq.gz L3-7-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-7-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-7-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-7-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-7-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-7-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-7-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-7-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-7-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-7-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL270_b9_RNA_Muscle.end1.fastq.gz L3-7-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-7-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-7-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-7-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL118_b9_ATAC_muscle.end1.fastq.gz L3-7-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-7-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL187_b14_ATAC_Skin.end1.fastq.gz L3-7-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-7-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-7-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-7-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL203_b14_RNA_Skin.end1.fastq.gz L3-7-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-7-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-7-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-7-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-7-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-7-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-7-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-7-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-7-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-7-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL270_b9_RNA_Muscle.end1.fastq.gz L3-7-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-7-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-7-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-7-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL118_b9_ATAC_muscle.end1.fastq.gz L3-7-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-7-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL187_b14_ATAC_Skin.end1.fastq.gz L3-7-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-7-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-7-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-7-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL203_b14_RNA_Skin.end1.fastq.gz L3-7-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-7-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-7-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-7-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-7-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-7-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-7-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-7-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-7-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-7-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL270_b9_RNA_Muscle.end1.fastq.gz L3-7-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-7-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-7-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-7-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL118_b9_ATAC_muscle.end1.fastq.gz L3-7-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-7-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL187_b14_ATAC_Skin.end1.fastq.gz L3-7-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-7-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-7-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-7-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL203_b14_RNA_Skin.end1.fastq.gz L3-7-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-7-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-7-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-7-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-7-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-7-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-7-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-7-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-7-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-7-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL270_b9_RNA_Muscle.end1.fastq.gz L3-7-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-7-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-7-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-7-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL118_b9_ATAC_muscle.end1.fastq.gz L3-7-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-7-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL187_b14_ATAC_Skin.end1.fastq.gz L3-7-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-7-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-7-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-7-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL203_b14_RNA_Skin.end1.fastq.gz L3-7-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-7-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-7-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-7-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-7-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-7-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-7-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-7-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-7-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-7-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL270_b9_RNA_Muscle.end1.fastq.gz L3-7-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-7-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-7-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-7-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL118_b9_ATAC_muscle.end1.fastq.gz L3-7-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L3-7-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL187_b14_ATAC_Skin.end1.fastq.gz L3-7-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L3-7-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L3-7-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L3-7-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL203_b14_RNA_Skin.end1.fastq.gz L3-7-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L3-7-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L3-7-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L3-7-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L3-7-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L3-7-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L3-7-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L3-7-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L3-7-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L3-7-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L3-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L3-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L3-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL270_b9_RNA_Muscle.end1.fastq.gz L3-7-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L3-7-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L3-7-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L3-7-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L3-7-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL118_b9_ATAC_muscle.end1.fastq.gz L4-0-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-0-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL187_b14_ATAC_Skin.end1.fastq.gz L4-0-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-0-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-0-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-0-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL203_b14_RNA_Skin.end1.fastq.gz L4-0-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-0-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-0-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-0-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-0-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-0-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-0-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-0-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-0-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-0-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL270_b9_RNA_Muscle.end1.fastq.gz L4-0-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-0-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-0-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-0-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL118_b9_ATAC_muscle.end1.fastq.gz L4-0-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-0-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL187_b14_ATAC_Skin.end1.fastq.gz L4-0-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-0-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-0-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-0-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL203_b14_RNA_Skin.end1.fastq.gz L4-0-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-0-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-0-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-0-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-0-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-0-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-0-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-0-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-0-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-0-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL270_b9_RNA_Muscle.end1.fastq.gz L4-0-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-0-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-0-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-0-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL118_b9_ATAC_muscle.end1.fastq.gz L4-0-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-0-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL187_b14_ATAC_Skin.end1.fastq.gz L4-0-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-0-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-0-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-0-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL203_b14_RNA_Skin.end1.fastq.gz L4-0-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-0-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-0-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-0-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-0-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-0-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-0-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-0-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-0-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-0-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL270_b9_RNA_Muscle.end1.fastq.gz L4-0-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-0-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-0-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-0-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL118_b9_ATAC_muscle.end1.fastq.gz L4-0-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-0-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL187_b14_ATAC_Skin.end1.fastq.gz L4-0-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-0-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-0-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-0-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL203_b14_RNA_Skin.end1.fastq.gz L4-0-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-0-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-0-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-0-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-0-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-0-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-0-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-0-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-0-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-0-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL270_b9_RNA_Muscle.end1.fastq.gz L4-0-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-0-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-0-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-0-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL118_b9_ATAC_muscle.end1.fastq.gz L4-0-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-0-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL187_b14_ATAC_Skin.end1.fastq.gz L4-0-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-0-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-0-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-0-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL203_b14_RNA_Skin.end1.fastq.gz L4-0-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-0-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-0-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-0-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-0-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-0-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-0-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-0-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-0-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-0-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL270_b9_RNA_Muscle.end1.fastq.gz L4-0-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-0-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-0-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-0-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL118_b9_ATAC_muscle.end1.fastq.gz L4-0-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-0-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL187_b14_ATAC_Skin.end1.fastq.gz L4-0-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-0-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-0-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-0-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL203_b14_RNA_Skin.end1.fastq.gz L4-0-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-0-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-0-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-0-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-0-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-0-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-0-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-0-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-0-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-0-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL270_b9_RNA_Muscle.end1.fastq.gz L4-0-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-0-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-0-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-0-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL118_b9_ATAC_muscle.end1.fastq.gz L4-0-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-0-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL187_b14_ATAC_Skin.end1.fastq.gz L4-0-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-0-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-0-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-0-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL203_b14_RNA_Skin.end1.fastq.gz L4-0-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-0-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-0-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-0-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-0-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-0-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-0-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-0-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-0-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-0-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL270_b9_RNA_Muscle.end1.fastq.gz L4-0-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-0-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-0-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-0-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL118_b9_ATAC_muscle.end1.fastq.gz L4-0-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-0-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL187_b14_ATAC_Skin.end1.fastq.gz L4-0-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-0-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-0-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-0-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL203_b14_RNA_Skin.end1.fastq.gz L4-0-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-0-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-0-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-0-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-0-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-0-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-0-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-0-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-0-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-0-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL270_b9_RNA_Muscle.end1.fastq.gz L4-0-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-0-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-0-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-0-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL118_b9_ATAC_muscle.end1.fastq.gz L4-0-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-0-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL187_b14_ATAC_Skin.end1.fastq.gz L4-0-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-0-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-0-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-0-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL203_b14_RNA_Skin.end1.fastq.gz L4-0-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-0-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-0-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-0-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-0-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-0-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-0-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-0-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-0-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-0-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-0-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL270_b9_RNA_Muscle.end1.fastq.gz L4-0-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-0-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-0-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-0-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-0-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL118_b9_ATAC_muscle.end1.fastq.gz L4-1-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-1-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL187_b14_ATAC_Skin.end1.fastq.gz L4-1-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-1-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-1-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-1-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL203_b14_RNA_Skin.end1.fastq.gz L4-1-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-1-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-1-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-1-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-1-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-1-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-1-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-1-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-1-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-1-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL270_b9_RNA_Muscle.end1.fastq.gz L4-1-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-1-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-1-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-1-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL118_b9_ATAC_muscle.end1.fastq.gz L4-1-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-1-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL187_b14_ATAC_Skin.end1.fastq.gz L4-1-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-1-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-1-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-1-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL203_b14_RNA_Skin.end1.fastq.gz L4-1-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-1-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-1-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-1-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-1-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-1-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-1-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-1-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-1-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-1-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL270_b9_RNA_Muscle.end1.fastq.gz L4-1-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-1-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-1-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-1-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL118_b9_ATAC_muscle.end1.fastq.gz L4-1-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-1-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL187_b14_ATAC_Skin.end1.fastq.gz L4-1-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-1-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-1-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-1-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL203_b14_RNA_Skin.end1.fastq.gz L4-1-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-1-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-1-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-1-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-1-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-1-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-1-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-1-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-1-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-1-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL270_b9_RNA_Muscle.end1.fastq.gz L4-1-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-1-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-1-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-1-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL118_b9_ATAC_muscle.end1.fastq.gz L4-1-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-1-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL187_b14_ATAC_Skin.end1.fastq.gz L4-1-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-1-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-1-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-1-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL203_b14_RNA_Skin.end1.fastq.gz L4-1-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-1-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-1-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-1-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-1-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-1-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-1-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-1-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-1-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-1-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL270_b9_RNA_Muscle.end1.fastq.gz L4-1-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-1-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-1-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-1-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL118_b9_ATAC_muscle.end1.fastq.gz L4-1-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-1-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL187_b14_ATAC_Skin.end1.fastq.gz L4-1-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-1-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-1-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-1-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL203_b14_RNA_Skin.end1.fastq.gz L4-1-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-1-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-1-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-1-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-1-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-1-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-1-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-1-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-1-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-1-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL270_b9_RNA_Muscle.end1.fastq.gz L4-1-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-1-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-1-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-1-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL118_b9_ATAC_muscle.end1.fastq.gz L4-1-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-1-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL187_b14_ATAC_Skin.end1.fastq.gz L4-1-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-1-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-1-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-1-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL203_b14_RNA_Skin.end1.fastq.gz L4-1-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-1-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-1-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-1-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-1-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-1-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-1-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-1-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-1-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-1-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL270_b9_RNA_Muscle.end1.fastq.gz L4-1-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-1-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-1-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-1-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL118_b9_ATAC_muscle.end1.fastq.gz L4-1-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-1-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL187_b14_ATAC_Skin.end1.fastq.gz L4-1-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-1-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-1-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-1-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL203_b14_RNA_Skin.end1.fastq.gz L4-1-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-1-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-1-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-1-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-1-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-1-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-1-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-1-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-1-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-1-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL270_b9_RNA_Muscle.end1.fastq.gz L4-1-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-1-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-1-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-1-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL118_b9_ATAC_muscle.end1.fastq.gz L4-1-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-1-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL187_b14_ATAC_Skin.end1.fastq.gz L4-1-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-1-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-1-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-1-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL203_b14_RNA_Skin.end1.fastq.gz L4-1-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-1-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-1-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-1-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-1-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-1-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-1-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-1-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-1-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-1-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL270_b9_RNA_Muscle.end1.fastq.gz L4-1-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-1-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-1-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-1-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL118_b9_ATAC_muscle.end1.fastq.gz L4-1-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-1-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL187_b14_ATAC_Skin.end1.fastq.gz L4-1-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-1-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-1-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-1-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL203_b14_RNA_Skin.end1.fastq.gz L4-1-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-1-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-1-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-1-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-1-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-1-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-1-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-1-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-1-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-1-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL270_b9_RNA_Muscle.end1.fastq.gz L4-1-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-1-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-1-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-1-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL118_b9_ATAC_muscle.end1.fastq.gz L4-1-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-1-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL187_b14_ATAC_Skin.end1.fastq.gz L4-1-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-1-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-1-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-1-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL203_b14_RNA_Skin.end1.fastq.gz L4-1-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-1-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-1-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-1-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-1-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-1-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-1-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-1-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-1-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-1-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-1-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL270_b9_RNA_Muscle.end1.fastq.gz L4-1-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-1-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-1-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-1-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-1-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL118_b9_ATAC_muscle.end1.fastq.gz L4-2-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-2-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL187_b14_ATAC_Skin.end1.fastq.gz L4-2-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-2-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-2-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-2-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL203_b14_RNA_Skin.end1.fastq.gz L4-2-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-2-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-2-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-2-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-2-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-2-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-2-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-2-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-2-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-2-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL270_b9_RNA_Muscle.end1.fastq.gz L4-2-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-2-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-2-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-2-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL118_b9_ATAC_muscle.end1.fastq.gz L4-2-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-2-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL187_b14_ATAC_Skin.end1.fastq.gz L4-2-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-2-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-2-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-2-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL203_b14_RNA_Skin.end1.fastq.gz L4-2-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-2-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-2-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-2-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-2-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-2-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-2-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-2-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-2-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-2-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL270_b9_RNA_Muscle.end1.fastq.gz L4-2-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-2-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-2-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-2-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL118_b9_ATAC_muscle.end1.fastq.gz L4-2-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-2-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL187_b14_ATAC_Skin.end1.fastq.gz L4-2-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-2-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-2-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-2-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL203_b14_RNA_Skin.end1.fastq.gz L4-2-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-2-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-2-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-2-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-2-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-2-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-2-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-2-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-2-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-2-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL270_b9_RNA_Muscle.end1.fastq.gz L4-2-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-2-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-2-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-2-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL118_b9_ATAC_muscle.end1.fastq.gz L4-2-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-2-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL187_b14_ATAC_Skin.end1.fastq.gz L4-2-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-2-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-2-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-2-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL203_b14_RNA_Skin.end1.fastq.gz L4-2-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-2-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-2-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-2-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-2-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-2-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-2-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-2-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-2-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-2-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL270_b9_RNA_Muscle.end1.fastq.gz L4-2-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-2-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-2-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-2-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL118_b9_ATAC_muscle.end1.fastq.gz L4-2-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-2-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL187_b14_ATAC_Skin.end1.fastq.gz L4-2-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-2-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-2-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-2-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL203_b14_RNA_Skin.end1.fastq.gz L4-2-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-2-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-2-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-2-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-2-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-2-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-2-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-2-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-2-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-2-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL270_b9_RNA_Muscle.end1.fastq.gz L4-2-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-2-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-2-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-2-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL118_b9_ATAC_muscle.end1.fastq.gz L4-2-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-2-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL187_b14_ATAC_Skin.end1.fastq.gz L4-2-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-2-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-2-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-2-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL203_b14_RNA_Skin.end1.fastq.gz L4-2-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-2-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-2-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-2-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-2-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-2-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-2-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-2-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-2-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-2-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL270_b9_RNA_Muscle.end1.fastq.gz L4-2-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-2-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-2-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-2-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL118_b9_ATAC_muscle.end1.fastq.gz L4-2-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-2-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL187_b14_ATAC_Skin.end1.fastq.gz L4-2-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-2-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-2-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-2-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL203_b14_RNA_Skin.end1.fastq.gz L4-2-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-2-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-2-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-2-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-2-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-2-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-2-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-2-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-2-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-2-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL270_b9_RNA_Muscle.end1.fastq.gz L4-2-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-2-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-2-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-2-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL118_b9_ATAC_muscle.end1.fastq.gz L4-2-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-2-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL187_b14_ATAC_Skin.end1.fastq.gz L4-2-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-2-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-2-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-2-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL203_b14_RNA_Skin.end1.fastq.gz L4-2-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-2-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-2-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-2-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-2-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-2-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-2-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-2-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-2-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-2-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL270_b9_RNA_Muscle.end1.fastq.gz L4-2-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-2-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-2-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-2-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL118_b9_ATAC_muscle.end1.fastq.gz L4-2-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-2-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL187_b14_ATAC_Skin.end1.fastq.gz L4-2-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-2-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-2-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-2-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL203_b14_RNA_Skin.end1.fastq.gz L4-2-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-2-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-2-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-2-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-2-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-2-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-2-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-2-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-2-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-2-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL270_b9_RNA_Muscle.end1.fastq.gz L4-2-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-2-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-2-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-2-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL118_b9_ATAC_muscle.end1.fastq.gz L4-2-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-2-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL187_b14_ATAC_Skin.end1.fastq.gz L4-2-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-2-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-2-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-2-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL203_b14_RNA_Skin.end1.fastq.gz L4-2-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-2-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-2-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-2-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-2-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-2-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-2-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-2-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-2-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-2-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-2-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL270_b9_RNA_Muscle.end1.fastq.gz L4-2-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-2-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-2-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-2-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-2-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL118_b9_ATAC_muscle.end1.fastq.gz L4-3-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-3-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL187_b14_ATAC_Skin.end1.fastq.gz L4-3-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-3-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-3-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-3-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL203_b14_RNA_Skin.end1.fastq.gz L4-3-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-3-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-3-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-3-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-3-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-3-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-3-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-3-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-3-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-3-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL270_b9_RNA_Muscle.end1.fastq.gz L4-3-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-3-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-3-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-3-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL118_b9_ATAC_muscle.end1.fastq.gz L4-3-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-3-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL187_b14_ATAC_Skin.end1.fastq.gz L4-3-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-3-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-3-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-3-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL203_b14_RNA_Skin.end1.fastq.gz L4-3-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-3-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-3-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-3-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-3-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-3-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-3-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-3-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-3-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-3-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL270_b9_RNA_Muscle.end1.fastq.gz L4-3-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-3-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-3-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-3-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL118_b9_ATAC_muscle.end1.fastq.gz L4-3-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-3-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL187_b14_ATAC_Skin.end1.fastq.gz L4-3-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-3-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-3-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-3-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL203_b14_RNA_Skin.end1.fastq.gz L4-3-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-3-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-3-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-3-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-3-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-3-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-3-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-3-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-3-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-3-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL270_b9_RNA_Muscle.end1.fastq.gz L4-3-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-3-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-3-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-3-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL118_b9_ATAC_muscle.end1.fastq.gz L4-3-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-3-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL187_b14_ATAC_Skin.end1.fastq.gz L4-3-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-3-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-3-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-3-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL203_b14_RNA_Skin.end1.fastq.gz L4-3-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-3-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-3-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-3-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-3-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-3-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-3-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-3-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-3-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-3-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL270_b9_RNA_Muscle.end1.fastq.gz L4-3-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-3-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-3-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-3-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL118_b9_ATAC_muscle.end1.fastq.gz L4-3-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-3-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL187_b14_ATAC_Skin.end1.fastq.gz L4-3-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-3-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-3-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-3-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL203_b14_RNA_Skin.end1.fastq.gz L4-3-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-3-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-3-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-3-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-3-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-3-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-3-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-3-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-3-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-3-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL270_b9_RNA_Muscle.end1.fastq.gz L4-3-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-3-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-3-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-3-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL118_b9_ATAC_muscle.end1.fastq.gz L4-3-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-3-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL187_b14_ATAC_Skin.end1.fastq.gz L4-3-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-3-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-3-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-3-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL203_b14_RNA_Skin.end1.fastq.gz L4-3-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-3-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-3-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-3-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-3-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-3-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-3-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-3-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-3-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-3-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL270_b9_RNA_Muscle.end1.fastq.gz L4-3-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-3-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-3-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-3-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL118_b9_ATAC_muscle.end1.fastq.gz L4-3-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-3-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL187_b14_ATAC_Skin.end1.fastq.gz L4-3-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-3-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-3-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-3-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL203_b14_RNA_Skin.end1.fastq.gz L4-3-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-3-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-3-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-3-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-3-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-3-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-3-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-3-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-3-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-3-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL270_b9_RNA_Muscle.end1.fastq.gz L4-3-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-3-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-3-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-3-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL118_b9_ATAC_muscle.end1.fastq.gz L4-3-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-3-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL187_b14_ATAC_Skin.end1.fastq.gz L4-3-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-3-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-3-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-3-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL203_b14_RNA_Skin.end1.fastq.gz L4-3-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-3-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-3-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-3-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-3-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-3-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-3-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-3-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-3-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-3-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL270_b9_RNA_Muscle.end1.fastq.gz L4-3-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-3-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-3-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-3-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL118_b9_ATAC_muscle.end1.fastq.gz L4-3-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-3-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL187_b14_ATAC_Skin.end1.fastq.gz L4-3-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-3-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-3-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-3-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL203_b14_RNA_Skin.end1.fastq.gz L4-3-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-3-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-3-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-3-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-3-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-3-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-3-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-3-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-3-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-3-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL270_b9_RNA_Muscle.end1.fastq.gz L4-3-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-3-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-3-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-3-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL118_b9_ATAC_muscle.end1.fastq.gz L4-3-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-3-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL187_b14_ATAC_Skin.end1.fastq.gz L4-3-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-3-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-3-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-3-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL203_b14_RNA_Skin.end1.fastq.gz L4-3-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-3-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-3-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-3-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-3-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-3-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-3-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-3-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-3-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-3-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-3-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL270_b9_RNA_Muscle.end1.fastq.gz L4-3-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-3-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-3-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-3-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-3-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL118_b9_ATAC_muscle.end1.fastq.gz L4-4-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-4-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL187_b14_ATAC_Skin.end1.fastq.gz L4-4-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-4-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-4-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-4-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL203_b14_RNA_Skin.end1.fastq.gz L4-4-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-4-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-4-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-4-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-4-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-4-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-4-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-4-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-4-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-4-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL270_b9_RNA_Muscle.end1.fastq.gz L4-4-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-4-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-4-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-4-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL118_b9_ATAC_muscle.end1.fastq.gz L4-4-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-4-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL187_b14_ATAC_Skin.end1.fastq.gz L4-4-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-4-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-4-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-4-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL203_b14_RNA_Skin.end1.fastq.gz L4-4-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-4-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-4-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-4-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-4-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-4-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-4-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-4-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-4-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-4-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL270_b9_RNA_Muscle.end1.fastq.gz L4-4-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-4-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-4-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-4-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL118_b9_ATAC_muscle.end1.fastq.gz L4-4-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-4-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL187_b14_ATAC_Skin.end1.fastq.gz L4-4-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-4-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-4-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-4-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL203_b14_RNA_Skin.end1.fastq.gz L4-4-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-4-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-4-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-4-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-4-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-4-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-4-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-4-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-4-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-4-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL270_b9_RNA_Muscle.end1.fastq.gz L4-4-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-4-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-4-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-4-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL118_b9_ATAC_muscle.end1.fastq.gz L4-4-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-4-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL187_b14_ATAC_Skin.end1.fastq.gz L4-4-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-4-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-4-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-4-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL203_b14_RNA_Skin.end1.fastq.gz L4-4-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-4-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-4-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-4-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-4-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-4-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-4-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-4-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-4-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-4-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL270_b9_RNA_Muscle.end1.fastq.gz L4-4-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-4-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-4-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-4-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL118_b9_ATAC_muscle.end1.fastq.gz L4-4-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-4-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL187_b14_ATAC_Skin.end1.fastq.gz L4-4-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-4-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-4-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-4-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL203_b14_RNA_Skin.end1.fastq.gz L4-4-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-4-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-4-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-4-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-4-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-4-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-4-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-4-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-4-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-4-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL270_b9_RNA_Muscle.end1.fastq.gz L4-4-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-4-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-4-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-4-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL118_b9_ATAC_muscle.end1.fastq.gz L4-4-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-4-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL187_b14_ATAC_Skin.end1.fastq.gz L4-4-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-4-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-4-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-4-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL203_b14_RNA_Skin.end1.fastq.gz L4-4-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-4-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-4-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-4-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-4-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-4-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-4-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-4-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-4-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-4-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL270_b9_RNA_Muscle.end1.fastq.gz L4-4-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-4-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-4-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-4-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL118_b9_ATAC_muscle.end1.fastq.gz L4-4-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-4-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL187_b14_ATAC_Skin.end1.fastq.gz L4-4-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-4-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-4-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-4-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL203_b14_RNA_Skin.end1.fastq.gz L4-4-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-4-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-4-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-4-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-4-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-4-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-4-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-4-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-4-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-4-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL270_b9_RNA_Muscle.end1.fastq.gz L4-4-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-4-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-4-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-4-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL118_b9_ATAC_muscle.end1.fastq.gz L4-4-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-4-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL187_b14_ATAC_Skin.end1.fastq.gz L4-4-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-4-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-4-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-4-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL203_b14_RNA_Skin.end1.fastq.gz L4-4-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-4-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-4-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-4-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-4-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-4-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-4-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-4-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-4-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-4-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL270_b9_RNA_Muscle.end1.fastq.gz L4-4-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-4-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-4-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-4-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL118_b9_ATAC_muscle.end1.fastq.gz L4-4-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-4-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL187_b14_ATAC_Skin.end1.fastq.gz L4-4-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-4-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-4-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-4-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL203_b14_RNA_Skin.end1.fastq.gz L4-4-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-4-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-4-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-4-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-4-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-4-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-4-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-4-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-4-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-4-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL270_b9_RNA_Muscle.end1.fastq.gz L4-4-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-4-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-4-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-4-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL118_b9_ATAC_muscle.end1.fastq.gz L4-4-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-4-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL187_b14_ATAC_Skin.end1.fastq.gz L4-4-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-4-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-4-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-4-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL203_b14_RNA_Skin.end1.fastq.gz L4-4-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-4-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-4-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-4-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-4-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-4-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-4-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-4-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-4-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-4-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-4-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL270_b9_RNA_Muscle.end1.fastq.gz L4-4-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-4-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-4-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-4-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-4-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL118_b9_ATAC_muscle.end1.fastq.gz L4-5-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-5-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL187_b14_ATAC_Skin.end1.fastq.gz L4-5-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-5-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-5-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-5-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL203_b14_RNA_Skin.end1.fastq.gz L4-5-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-5-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-5-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-5-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-5-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-5-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-5-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-5-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-5-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-5-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL270_b9_RNA_Muscle.end1.fastq.gz L4-5-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-5-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-5-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-5-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL118_b9_ATAC_muscle.end1.fastq.gz L4-5-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-5-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL187_b14_ATAC_Skin.end1.fastq.gz L4-5-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-5-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-5-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-5-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL203_b14_RNA_Skin.end1.fastq.gz L4-5-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-5-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-5-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-5-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-5-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-5-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-5-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-5-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-5-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-5-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL270_b9_RNA_Muscle.end1.fastq.gz L4-5-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-5-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-5-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-5-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL118_b9_ATAC_muscle.end1.fastq.gz L4-5-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-5-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL187_b14_ATAC_Skin.end1.fastq.gz L4-5-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-5-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-5-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-5-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL203_b14_RNA_Skin.end1.fastq.gz L4-5-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-5-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-5-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-5-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-5-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-5-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-5-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-5-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-5-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-5-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL270_b9_RNA_Muscle.end1.fastq.gz L4-5-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-5-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-5-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-5-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL118_b9_ATAC_muscle.end1.fastq.gz L4-5-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-5-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL187_b14_ATAC_Skin.end1.fastq.gz L4-5-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-5-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-5-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-5-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL203_b14_RNA_Skin.end1.fastq.gz L4-5-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-5-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-5-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-5-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-5-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-5-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-5-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-5-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-5-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-5-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL270_b9_RNA_Muscle.end1.fastq.gz L4-5-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-5-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-5-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-5-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL118_b9_ATAC_muscle.end1.fastq.gz L4-5-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-5-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL187_b14_ATAC_Skin.end1.fastq.gz L4-5-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-5-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-5-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-5-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL203_b14_RNA_Skin.end1.fastq.gz L4-5-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-5-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-5-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-5-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-5-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-5-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-5-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-5-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-5-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-5-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL270_b9_RNA_Muscle.end1.fastq.gz L4-5-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-5-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-5-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-5-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL118_b9_ATAC_muscle.end1.fastq.gz L4-5-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-5-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL187_b14_ATAC_Skin.end1.fastq.gz L4-5-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-5-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-5-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-5-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL203_b14_RNA_Skin.end1.fastq.gz L4-5-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-5-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-5-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-5-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-5-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-5-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-5-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-5-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-5-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-5-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL270_b9_RNA_Muscle.end1.fastq.gz L4-5-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-5-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-5-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-5-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL118_b9_ATAC_muscle.end1.fastq.gz L4-5-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-5-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL187_b14_ATAC_Skin.end1.fastq.gz L4-5-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-5-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-5-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-5-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL203_b14_RNA_Skin.end1.fastq.gz L4-5-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-5-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-5-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-5-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-5-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-5-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-5-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-5-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-5-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-5-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL270_b9_RNA_Muscle.end1.fastq.gz L4-5-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-5-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-5-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-5-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL118_b9_ATAC_muscle.end1.fastq.gz L4-5-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-5-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL187_b14_ATAC_Skin.end1.fastq.gz L4-5-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-5-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-5-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-5-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL203_b14_RNA_Skin.end1.fastq.gz L4-5-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-5-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-5-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-5-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-5-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-5-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-5-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-5-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-5-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-5-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL270_b9_RNA_Muscle.end1.fastq.gz L4-5-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-5-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-5-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-5-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL118_b9_ATAC_muscle.end1.fastq.gz L4-5-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-5-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL187_b14_ATAC_Skin.end1.fastq.gz L4-5-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-5-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-5-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-5-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL203_b14_RNA_Skin.end1.fastq.gz L4-5-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-5-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-5-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-5-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-5-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-5-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-5-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-5-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-5-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-5-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL270_b9_RNA_Muscle.end1.fastq.gz L4-5-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-5-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-5-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-5-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL118_b9_ATAC_muscle.end1.fastq.gz L4-5-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-5-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL187_b14_ATAC_Skin.end1.fastq.gz L4-5-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-5-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-5-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-5-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL203_b14_RNA_Skin.end1.fastq.gz L4-5-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-5-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-5-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-5-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-5-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-5-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-5-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-5-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-5-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-5-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-5-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL270_b9_RNA_Muscle.end1.fastq.gz L4-5-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-5-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-5-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-5-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-5-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL118_b9_ATAC_muscle.end1.fastq.gz L4-6-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-6-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL187_b14_ATAC_Skin.end1.fastq.gz L4-6-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-6-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-6-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-6-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL203_b14_RNA_Skin.end1.fastq.gz L4-6-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-6-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-6-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-6-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-6-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-6-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-6-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-6-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-6-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-6-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL270_b9_RNA_Muscle.end1.fastq.gz L4-6-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-6-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-6-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-6-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL118_b9_ATAC_muscle.end1.fastq.gz L4-6-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-6-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL187_b14_ATAC_Skin.end1.fastq.gz L4-6-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-6-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-6-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-6-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL203_b14_RNA_Skin.end1.fastq.gz L4-6-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-6-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-6-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-6-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-6-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-6-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-6-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-6-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-6-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-6-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL270_b9_RNA_Muscle.end1.fastq.gz L4-6-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-6-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-6-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-6-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL118_b9_ATAC_muscle.end1.fastq.gz L4-6-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-6-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL187_b14_ATAC_Skin.end1.fastq.gz L4-6-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-6-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-6-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-6-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL203_b14_RNA_Skin.end1.fastq.gz L4-6-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-6-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-6-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-6-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-6-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-6-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-6-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-6-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-6-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-6-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL270_b9_RNA_Muscle.end1.fastq.gz L4-6-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-6-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-6-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-6-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL118_b9_ATAC_muscle.end1.fastq.gz L4-6-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-6-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL187_b14_ATAC_Skin.end1.fastq.gz L4-6-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-6-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-6-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-6-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL203_b14_RNA_Skin.end1.fastq.gz L4-6-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-6-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-6-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-6-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-6-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-6-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-6-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-6-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-6-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-6-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL270_b9_RNA_Muscle.end1.fastq.gz L4-6-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-6-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-6-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-6-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL118_b9_ATAC_muscle.end1.fastq.gz L4-6-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-6-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL187_b14_ATAC_Skin.end1.fastq.gz L4-6-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-6-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-6-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-6-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL203_b14_RNA_Skin.end1.fastq.gz L4-6-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-6-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-6-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-6-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-6-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-6-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-6-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-6-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-6-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-6-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL270_b9_RNA_Muscle.end1.fastq.gz L4-6-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-6-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-6-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-6-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL118_b9_ATAC_muscle.end1.fastq.gz L4-6-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-6-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL187_b14_ATAC_Skin.end1.fastq.gz L4-6-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-6-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-6-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-6-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL203_b14_RNA_Skin.end1.fastq.gz L4-6-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-6-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-6-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-6-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-6-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-6-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-6-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-6-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-6-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-6-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL270_b9_RNA_Muscle.end1.fastq.gz L4-6-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-6-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-6-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-6-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL118_b9_ATAC_muscle.end1.fastq.gz L4-6-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-6-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL187_b14_ATAC_Skin.end1.fastq.gz L4-6-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-6-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-6-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-6-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL203_b14_RNA_Skin.end1.fastq.gz L4-6-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-6-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-6-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-6-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-6-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-6-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-6-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-6-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-6-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-6-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL270_b9_RNA_Muscle.end1.fastq.gz L4-6-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-6-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-6-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-6-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL118_b9_ATAC_muscle.end1.fastq.gz L4-6-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-6-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL187_b14_ATAC_Skin.end1.fastq.gz L4-6-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-6-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-6-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-6-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL203_b14_RNA_Skin.end1.fastq.gz L4-6-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-6-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-6-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-6-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-6-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-6-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-6-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-6-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-6-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-6-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL270_b9_RNA_Muscle.end1.fastq.gz L4-6-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-6-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-6-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-6-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL118_b9_ATAC_muscle.end1.fastq.gz L4-6-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-6-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL187_b14_ATAC_Skin.end1.fastq.gz L4-6-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-6-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-6-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-6-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL203_b14_RNA_Skin.end1.fastq.gz L4-6-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-6-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-6-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-6-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-6-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-6-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-6-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-6-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-6-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-6-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL270_b9_RNA_Muscle.end1.fastq.gz L4-6-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-6-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-6-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-6-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL118_b9_ATAC_muscle.end1.fastq.gz L4-6-9/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-6-9/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-9/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-9/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-9/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-9/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL187_b14_ATAC_Skin.end1.fastq.gz L4-6-9/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-6-9/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-6-9/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-6-9/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL203_b14_RNA_Skin.end1.fastq.gz L4-6-9/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-6-9/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-6-9/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-6-9/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-6-9/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-6-9/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-6-9/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-6-9/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-6-9/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-6-9/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-9/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-6-9/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL270_b9_RNA_Muscle.end1.fastq.gz L4-6-9/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-6-9/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-6-9/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-6-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-6-9/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL118_b9_ATAC_muscle.end1.fastq.gz L4-7-0/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-7-0/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-0/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-0/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-0/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-0/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL187_b14_ATAC_Skin.end1.fastq.gz L4-7-0/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-7-0/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-7-0/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-7-0/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL203_b14_RNA_Skin.end1.fastq.gz L4-7-0/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-7-0/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-7-0/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-7-0/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-7-0/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-7-0/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-7-0/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-7-0/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-7-0/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-7-0/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-0/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-0/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL270_b9_RNA_Muscle.end1.fastq.gz L4-7-0/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-7-0/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-7-0/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-7-0/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL118_b9_ATAC_muscle.end1.fastq.gz L4-7-1/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-7-1/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-1/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-1/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-1/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-1/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL187_b14_ATAC_Skin.end1.fastq.gz L4-7-1/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-7-1/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-7-1/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-7-1/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL203_b14_RNA_Skin.end1.fastq.gz L4-7-1/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-7-1/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-7-1/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-7-1/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-7-1/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-7-1/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-7-1/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-7-1/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-7-1/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-7-1/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-1/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-1/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL270_b9_RNA_Muscle.end1.fastq.gz L4-7-1/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-7-1/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-7-1/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-7-1/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL118_b9_ATAC_muscle.end1.fastq.gz L4-7-2/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-7-2/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-2/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-2/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-2/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-2/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL187_b14_ATAC_Skin.end1.fastq.gz L4-7-2/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-7-2/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-7-2/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-7-2/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL203_b14_RNA_Skin.end1.fastq.gz L4-7-2/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-7-2/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-7-2/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-7-2/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-7-2/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-7-2/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-7-2/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-7-2/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-7-2/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-7-2/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-2/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-2/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL270_b9_RNA_Muscle.end1.fastq.gz L4-7-2/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-7-2/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-7-2/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-7-2/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL118_b9_ATAC_muscle.end1.fastq.gz L4-7-3/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-7-3/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-3/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-3/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-3/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-3/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL187_b14_ATAC_Skin.end1.fastq.gz L4-7-3/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-7-3/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-7-3/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-7-3/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL203_b14_RNA_Skin.end1.fastq.gz L4-7-3/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-7-3/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-7-3/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-7-3/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-7-3/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-7-3/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-7-3/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-7-3/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-7-3/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-7-3/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-3/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-3/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL270_b9_RNA_Muscle.end1.fastq.gz L4-7-3/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-7-3/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-7-3/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-7-3/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL118_b9_ATAC_muscle.end1.fastq.gz L4-7-4/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-7-4/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-4/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-4/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-4/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-4/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL187_b14_ATAC_Skin.end1.fastq.gz L4-7-4/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-7-4/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-7-4/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-7-4/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL203_b14_RNA_Skin.end1.fastq.gz L4-7-4/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-7-4/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-7-4/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-7-4/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-7-4/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-7-4/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-7-4/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-7-4/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-7-4/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-7-4/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-4/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-4/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL270_b9_RNA_Muscle.end1.fastq.gz L4-7-4/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-7-4/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-7-4/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-7-4/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL118_b9_ATAC_muscle.end1.fastq.gz L4-7-5/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-7-5/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-5/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-5/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-5/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-5/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL187_b14_ATAC_Skin.end1.fastq.gz L4-7-5/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-7-5/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-7-5/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-7-5/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL203_b14_RNA_Skin.end1.fastq.gz L4-7-5/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-7-5/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-7-5/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-7-5/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-7-5/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-7-5/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-7-5/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-7-5/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-7-5/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-7-5/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-5/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-5/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL270_b9_RNA_Muscle.end1.fastq.gz L4-7-5/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-7-5/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-7-5/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-7-5/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL118_b9_ATAC_muscle.end1.fastq.gz L4-7-6/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-7-6/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-6/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-6/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-6/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-6/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL187_b14_ATAC_Skin.end1.fastq.gz L4-7-6/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-7-6/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-7-6/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-7-6/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL203_b14_RNA_Skin.end1.fastq.gz L4-7-6/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-7-6/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-7-6/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-7-6/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-7-6/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-7-6/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-7-6/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-7-6/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-7-6/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-7-6/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-6/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-6/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL270_b9_RNA_Muscle.end1.fastq.gz L4-7-6/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-7-6/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-7-6/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-7-6/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL118_b9_ATAC_muscle.end1.fastq.gz L4-7-7/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-7-7/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-7/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-7/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-7/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-7/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL187_b14_ATAC_Skin.end1.fastq.gz L4-7-7/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-7-7/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-7-7/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-7-7/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL203_b14_RNA_Skin.end1.fastq.gz L4-7-7/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-7-7/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-7-7/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-7-7/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-7-7/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-7-7/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-7-7/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-7-7/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-7-7/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-7-7/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-7/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-7/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL270_b9_RNA_Muscle.end1.fastq.gz L4-7-7/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-7-7/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-7-7/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-7-7/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL118_b9_ATAC_muscle.end1.fastq.gz L4-7-8/SL118_b9_ATAC_muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL118_b9_ATAC_muscle.barcodes_annotated; gzip L4-7-8/SL118_b9_ATAC_muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL122_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-8/SL122_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-8/SL122_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL182_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-8/SL182_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-8/SL182_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL187_b14_ATAC_Skin.end1.fastq.gz L4-7-8/SL187_b14_ATAC_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL187_b14_ATAC_Skin.barcodes_annotated; gzip L4-7-8/SL187_b14_ATAC_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL198_b13_RNA_EyeRedo.end1.fastq.gz L4-7-8/SL198_b13_RNA_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL198_b13_RNA_EyeRedo.barcodes_annotated; gzip L4-7-8/SL198_b13_RNA_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL203_b14_RNA_Skin.end1.fastq.gz L4-7-8/SL203_b14_RNA_Skin.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL203_b14_RNA_Skin.barcodes_annotated; gzip L4-7-8/SL203_b14_RNA_Skin.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL211_b15_ATAC_LiverRedo.end1.fastq.gz L4-7-8/SL211_b15_ATAC_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated; gzip L4-7-8/SL211_b15_ATAC_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL221_b15_RNA_LiverRedo.end1.fastq.gz L4-7-8/SL221_b15_RNA_LiverRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL221_b15_RNA_LiverRedo.barcodes_annotated; gzip L4-7-8/SL221_b15_RNA_LiverRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL230_b17_ATAC_SpleenThymus.end1.fastq.gz L4-7-8/SL230_b17_ATAC_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated; gzip L4-7-8/SL230_b17_ATAC_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL246_b17_RNA_SpleenThymus.end1.fastq.gz L4-7-8/SL246_b17_RNA_SpleenThymus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated; gzip L4-7-8/SL246_b17_RNA_SpleenThymus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end1.fastq.gz L4-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-8/SL262_b15_ATAC_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.end1.fastq.gz L4-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated; gzip L4-7-8/SL264_b15_RNA_AdrenalThyroidSpleen.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL270_b9_RNA_Muscle.end1.fastq.gz L4-7-8/SL270_b9_RNA_Muscle.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL270_b9_RNA_Muscle.barcodes_annotated; gzip L4-7-8/SL270_b9_RNA_Muscle.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL274_b10_RNA_StomachEsophagus.end1.fastq.gz L4-7-8/SL274_b10_RNA_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R3.tsv 2 91 8 -revcompBC | python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited-reverse.py - L4-7-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated; gzip L4-7-8/SL274_b10_RNA_StomachEsophagus.barcodes_annotated.end*.fastq