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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-0-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-0-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-0-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-0-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-0-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-0-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-0-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-0-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-0-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-0-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-0-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-0-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-0-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-0-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-0-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-0-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-0-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-0-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-0-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-0-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-0-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-0-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-0-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-1-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-1-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-1-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-1-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-1-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-1-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-1-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-1-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-1-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-1-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-1-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-1-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-1-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-1-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-1-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-1-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-1-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-1-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-1-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-1-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-1-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-1-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-1-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-1-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-1-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-2-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-2-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-2-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-2-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-2-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-2-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-2-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-2-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-2-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-2-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-2-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-2-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-2-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-2-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-2-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-2-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-2-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-2-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-2-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-2-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-2-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-2-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-2-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-2-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-2-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-3-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-3-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-3-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-3-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-3-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-3-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-3-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-3-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-3-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-3-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-3-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-3-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-3-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-3-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-3-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-3-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-3-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-3-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-3-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-3-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-3-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-3-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-3-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-3-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-3-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-4-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-4-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-4-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-4-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-4-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-4-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-4-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-4-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-4-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-4-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-4-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-4-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-4-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-4-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-4-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-4-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-4-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-4-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-4-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-4-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-4-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-4-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-4-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-4-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-4-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-5-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-5-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-5-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-5-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-5-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-5-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-5-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-5-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-5-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-5-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-5-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-5-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-5-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-5-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-5-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-5-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-5-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-5-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-5-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-5-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-5-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-5-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-5-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-5-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-5-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-6-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-6-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-6-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-6-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-6-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-6-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-6-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-6-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-6-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-6-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-6-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-6-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-6-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-6-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-6-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-6-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-6-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-6-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-6-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-6-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-6-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-6-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-6-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-6-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-6-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-7-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-7-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-7-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-7-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-7-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-7-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-7-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-7-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-7-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-7-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-7-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-7-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-7-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-7-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-7-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-7-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L1-7-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L1-7-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L1-7-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L1-7-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L1-7-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L1-7-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L1-7-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-0-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-0-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-0-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-0-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-0-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-0-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-0-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-0-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-0-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-0-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-0-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-0-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-0-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-0-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-0-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-0-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-0-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-0-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-0-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-0-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-0-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-0-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-0-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-1-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-1-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-1-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-1-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-1-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-1-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-1-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-1-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-1-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-1-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-1-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-1-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-1-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-1-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-1-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-1-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-1-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-1-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-1-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-1-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-1-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-1-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-1-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-1-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-1-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-2-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-2-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-2-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-2-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-2-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-2-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-2-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-2-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-2-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-2-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-2-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-2-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-2-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-2-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-2-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-2-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-2-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-2-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-2-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-2-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-2-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-2-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-2-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-2-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-2-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-3-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-3-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-3-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-3-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-3-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-3-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-3-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-3-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-3-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-3-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-3-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-3-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-3-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-3-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-3-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-3-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-3-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-3-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-3-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-3-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-3-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-3-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-3-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-3-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-3-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-4-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-4-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-4-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-4-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-4-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-4-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-4-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-4-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-4-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-4-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-4-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-4-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-4-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-4-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-4-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-4-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-4-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-4-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-4-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-4-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-4-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-4-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-4-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-4-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-4-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-5-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-5-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-5-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-5-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-5-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-5-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-5-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-5-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-5-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-5-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-5-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-5-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-5-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-5-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-5-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-5-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-5-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-5-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-5-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-5-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-5-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-5-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-5-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-5-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-5-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-6-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-6-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-6-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-6-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-6-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-6-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-6-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-6-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-6-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-6-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-6-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-6-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-6-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-6-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-6-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-6-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-6-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-6-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-6-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-6-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-6-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-6-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-6-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-6-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-6-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-7-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-7-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-7-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-7-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-7-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-7-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-7-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-7-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-7-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-7-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-7-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-7-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-7-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-7-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-7-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-7-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L2-7-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L2-7-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L2-7-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L2-7-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L2-7-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L2-7-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L2-7-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-0-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-0-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-0-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-0-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-0-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-0-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-0-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-0-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-0-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-0-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-0-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-0-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-0-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-0-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-0-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-0-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-0-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-0-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-0-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-0-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-0-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-0-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-0-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-1-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-1-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-1-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-1-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-1-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-1-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-1-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-1-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-1-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-1-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-1-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-1-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-1-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-1-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-1-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-1-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-1-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-1-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-1-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-1-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-1-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-1-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-1-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-1-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-1-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-2-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-2-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-2-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-2-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-2-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-2-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-2-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-2-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-2-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-2-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-2-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-2-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-2-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-2-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-2-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-2-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-2-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-2-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-2-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-2-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-2-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-2-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-2-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-2-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-2-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-3-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-3-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-3-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-3-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-3-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-3-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-3-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-3-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-3-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-3-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-3-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-3-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-3-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-3-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-3-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-3-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-3-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-3-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-3-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-3-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-3-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-3-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-3-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-3-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-3-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-4-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-4-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-4-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-4-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-4-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-4-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-4-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-4-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-4-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-4-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-4-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-4-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-4-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-4-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-4-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-4-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-4-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-4-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-4-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-4-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-4-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-4-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-4-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-4-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-4-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-5-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-5-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-5-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-5-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-5-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-5-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-5-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-5-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-5-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-5-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-5-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-5-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-5-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-5-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-5-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-5-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-5-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-5-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-5-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-5-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-5-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-5-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-5-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-5-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-5-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-6-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-6-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-6-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-6-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-6-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-6-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-6-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-6-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-6-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-6-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-6-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-6-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-6-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-6-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-6-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-6-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-6-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-6-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-6-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-6-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-6-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-6-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-6-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-6-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-6-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-7-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-7-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-7-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-7-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-7-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-7-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-7-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-7-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-7-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-7-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-7-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-7-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-7-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-7-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-7-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-7-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L3-7-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L3-7-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L3-7-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L3-7-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L3-7-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L3-7-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L3-7-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-0-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-0-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-0-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-0-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-0-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-0-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-0-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-0-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-0-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-0-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-0-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-0-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-0-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-0-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-0-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-0-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-0-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-0-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-0-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-0-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-0-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-0-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-0-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-1-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-1-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-1-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-1-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-1-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-1-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-1-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-1-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-1-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-1-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-1-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-1-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-1-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-1-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-1-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-1-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-1-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-1-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-1-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-1-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-1-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-1-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-1-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-1-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-1-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-2-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-2-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-2-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-2-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-2-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-2-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-2-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-2-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-2-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-2-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-2-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-2-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-2-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-2-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-2-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-2-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-2-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-2-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-2-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-2-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-2-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-2-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-2-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-2-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-2-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-3-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-3-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-3-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-3-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-3-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-3-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-3-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-3-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-3-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-3-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-3-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-3-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-3-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-3-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-3-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-3-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-3-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-3-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-3-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-3-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-3-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-3-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-3-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-3-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-3-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-4-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-4-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-4-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-4-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-4-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-4-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-4-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-4-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-4-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-4-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-4-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-4-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-4-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-4-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-4-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-4-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-4-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-4-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-4-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-4-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-4-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-4-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-4-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-4-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-4-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-5-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-5-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-5-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-5-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-5-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-5-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-5-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-5-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-5-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-5-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-5-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-5-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-5-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-5-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-5-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-5-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-5-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-5-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-5-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-5-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-5-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-5-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-5-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-5-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-5-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-6-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-6-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-6-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-6-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-6-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-6-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-6-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-6-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-6-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-6-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-6-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-6-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-6-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-6-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-6-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-6-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-6-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-6-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-8/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-9/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-9/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-9/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-9/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-9/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-9/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-9/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-9/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-9/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-9/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-6-9/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-6-9/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-6-9/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-6-9/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-9/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-9/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-9/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-9/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-9/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-9/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-9/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-9/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-6-9/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-6-9/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-6-9/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-0/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-0/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-0/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-0/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-0/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-0/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-0/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-0/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-0/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-0/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-0/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-0/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-7-0/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-7-0/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-0/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-0/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-0/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-0/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-0/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-0/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-0/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-0/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-0/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-0/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-0/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-1/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-1/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-1/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-1/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-1/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-1/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-1/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-1/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-1/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-1/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-1/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-1/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-7-1/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-7-1/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-1/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-1/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-1/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-1/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-1/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-1/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-1/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-1/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-1/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-1/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-1/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-2/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-2/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-2/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-2/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-2/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-2/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-2/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-2/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-2/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-2/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-2/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-2/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-7-2/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-7-2/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-2/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-2/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-2/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-2/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-2/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-2/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-2/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-2/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-2/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-2/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-2/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-3/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-3/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-3/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-3/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-3/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-3/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-3/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-3/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-3/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-3/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-3/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-3/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-7-3/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-7-3/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-3/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-3/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-3/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-3/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-3/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-3/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-3/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-3/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-3/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-3/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-3/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-4/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-4/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-4/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-4/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-4/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-4/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-4/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-4/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-4/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-4/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-4/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-4/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-7-4/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-7-4/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-4/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-4/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-4/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-4/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-4/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-4/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-4/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-4/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-4/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-4/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-4/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-5/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-5/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-5/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-5/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-5/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-5/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-5/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-5/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-5/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-5/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-5/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-5/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-7-5/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-7-5/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-5/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-5/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-5/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-5/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-5/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-5/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-5/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-5/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-5/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-5/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-5/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-6/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-6/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-6/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-6/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-6/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-6/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-6/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-6/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-6/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-6/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-6/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-6/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-7-6/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-7-6/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-6/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-6/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-6/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-6/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-6/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-6/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-6/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-6/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-6/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-6/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-6/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-7/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-7/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-7/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-7/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-7/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-7/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-7/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-7/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-7/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-7/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-7/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-7/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-7-7/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-7-7/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-7/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-7/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-7/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-7/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-7/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-7/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-7/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-7/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-7/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-7/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-7/SL181_b13_ATAC_EyeRedo.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/SL123_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-8/SL123_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-8/SL123_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL124_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-8/SL124_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-8/SL124_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL125_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-8/SL125_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-8/SL125_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL126_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-8/SL126_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-8/SL126_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL127_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-8/SL127_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-8/SL127_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL128_b10_ATAC_StomachEsophagus.end1.fastq.gz L4-7-8/SL128_b10_ATAC_StomachEsophagus.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated; gzip L4-7-8/SL128_b10_ATAC_StomachEsophagus.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL159_b12_ATAC_LungRedo.end1.fastq.gz L4-7-8/SL159_b12_ATAC_LungRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL159_b12_ATAC_LungRedo.barcodes_annotated; gzip L4-7-8/SL159_b12_ATAC_LungRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL177_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-8/SL177_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL177_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-8/SL177_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL178_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-8/SL178_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL178_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-8/SL178_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL179_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-8/SL179_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL179_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-8/SL179_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL180_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-8/SL180_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL180_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-8/SL180_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq
python /oak/stanford/groups/akundaje/marinovg/code/PEFastqToTabDelimited.py L4-7-8/SL181_b13_ATAC_EyeRedo.end1.fastq.gz L4-7-8/SL181_b13_ATAC_EyeRedo.end2.fastq.gz | python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq-barcode-annotate.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R1.tsv 2 15 8 /oak/stanford/groups/akundaje/marinovg/ENCODE4/single-cell/SHARE-seq-barcodes/Plate_R2.tsv 2 53 8 /oak/stanford/groups/akundaje/marinovg/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/SL181_b13_ATAC_EyeRedo.barcodes_annotated; gzip L4-7-8/SL181_b13_ATAC_EyeRedo.barcodes_annotated.end*.fastq