python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL261_b15_ATAC_AdrenalThyroidSpleen.T40_b16_Adr_PCW17.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL261_b15_ATAC_AdrenalThyroidSpleen.T40_b16_Adr_PCW17.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL262_b15_ATAC_AdrenalThyroidSpleen.T40_b16_Adr_PCW17.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL262_b15_ATAC_AdrenalThyroidSpleen.T40_b16_Adr_PCW17.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL261_b15_ATAC_AdrenalThyroidSpleen.T390_b16_Adr_PCW13.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL261_b15_ATAC_AdrenalThyroidSpleen.T390_b16_Adr_PCW13.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL262_b15_ATAC_AdrenalThyroidSpleen.T390_b16_Adr_PCW13.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL262_b15_ATAC_AdrenalThyroidSpleen.T390_b16_Adr_PCW13.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL261_b15_ATAC_AdrenalThyroidSpleen.T318_b16_Adr_PCW21.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL261_b15_ATAC_AdrenalThyroidSpleen.T318_b16_Adr_PCW21.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL262_b15_ATAC_AdrenalThyroidSpleen.T318_b16_Adr_PCW21.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL262_b15_ATAC_AdrenalThyroidSpleen.T318_b16_Adr_PCW21.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL261_b15_ATAC_AdrenalThyroidSpleen.T314_b16_Spleen_PCW21.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL261_b15_ATAC_AdrenalThyroidSpleen.T314_b16_Spleen_PCW21.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL262_b15_ATAC_AdrenalThyroidSpleen.T314_b16_Spleen_PCW21.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL262_b15_ATAC_AdrenalThyroidSpleen.T314_b16_Spleen_PCW21.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL261_b15_ATAC_AdrenalThyroidSpleen.T273_b16_Adr_PCW18.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL261_b15_ATAC_AdrenalThyroidSpleen.T273_b16_Adr_PCW18.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL262_b15_ATAC_AdrenalThyroidSpleen.T273_b16_Adr_PCW18.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL262_b15_ATAC_AdrenalThyroidSpleen.T273_b16_Adr_PCW18.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL261_b15_ATAC_AdrenalThyroidSpleen.T176_b16_Thyroid_PCW19.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL261_b15_ATAC_AdrenalThyroidSpleen.T176_b16_Thyroid_PCW19.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL262_b15_ATAC_AdrenalThyroidSpleen.T176_b16_Thyroid_PCW19.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL262_b15_ATAC_AdrenalThyroidSpleen.T176_b16_Thyroid_PCW19.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL261_b15_ATAC_AdrenalThyroidSpleen.T136_b16_Thyroid_PCW21.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL261_b15_ATAC_AdrenalThyroidSpleen.T136_b16_Thyroid_PCW21.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL262_b15_ATAC_AdrenalThyroidSpleen.T136_b16_Thyroid_PCW21.2x36mers.hg38.unique.BC_dedup.bam SAMstats-SL262_b15_ATAC_AdrenalThyroidSpleen.T136_b16_Thyroid_PCW21.2x36mers.hg38.unique.BC_dedup -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL261_b15_ATAC_AdrenalThyroidSpleen.T40_b16_Adr_PCW17.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL261_b15_ATAC_AdrenalThyroidSpleen.T40_b16_Adr_PCW17.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL262_b15_ATAC_AdrenalThyroidSpleen.T40_b16_Adr_PCW17.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL262_b15_ATAC_AdrenalThyroidSpleen.T40_b16_Adr_PCW17.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL261_b15_ATAC_AdrenalThyroidSpleen.T390_b16_Adr_PCW13.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL261_b15_ATAC_AdrenalThyroidSpleen.T390_b16_Adr_PCW13.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL262_b15_ATAC_AdrenalThyroidSpleen.T390_b16_Adr_PCW13.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL262_b15_ATAC_AdrenalThyroidSpleen.T390_b16_Adr_PCW13.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL261_b15_ATAC_AdrenalThyroidSpleen.T318_b16_Adr_PCW21.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL261_b15_ATAC_AdrenalThyroidSpleen.T318_b16_Adr_PCW21.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL262_b15_ATAC_AdrenalThyroidSpleen.T318_b16_Adr_PCW21.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL262_b15_ATAC_AdrenalThyroidSpleen.T318_b16_Adr_PCW21.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL261_b15_ATAC_AdrenalThyroidSpleen.T314_b16_Spleen_PCW21.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL261_b15_ATAC_AdrenalThyroidSpleen.T314_b16_Spleen_PCW21.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL262_b15_ATAC_AdrenalThyroidSpleen.T314_b16_Spleen_PCW21.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL262_b15_ATAC_AdrenalThyroidSpleen.T314_b16_Spleen_PCW21.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL261_b15_ATAC_AdrenalThyroidSpleen.T273_b16_Adr_PCW18.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL261_b15_ATAC_AdrenalThyroidSpleen.T273_b16_Adr_PCW18.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL262_b15_ATAC_AdrenalThyroidSpleen.T273_b16_Adr_PCW18.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL262_b15_ATAC_AdrenalThyroidSpleen.T273_b16_Adr_PCW18.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL261_b15_ATAC_AdrenalThyroidSpleen.T176_b16_Thyroid_PCW19.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL261_b15_ATAC_AdrenalThyroidSpleen.T176_b16_Thyroid_PCW19.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL262_b15_ATAC_AdrenalThyroidSpleen.T176_b16_Thyroid_PCW19.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL262_b15_ATAC_AdrenalThyroidSpleen.T176_b16_Thyroid_PCW19.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL261_b15_ATAC_AdrenalThyroidSpleen.T136_b16_Thyroid_PCW21.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL261_b15_ATAC_AdrenalThyroidSpleen.T136_b16_Thyroid_PCW21.2x36mers.hg38.unique.BC_dedup.per_cell_stats
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_stats_per_cell.py SL262_b15_ATAC_AdrenalThyroidSpleen.T136_b16_Thyroid_PCW21.2x36mers.hg38.unique.BC_dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/genomes/hg20/2016-11-16-refFlat.TSS-0bp.bed 0 1 2000 200 SL262_b15_ATAC_AdrenalThyroidSpleen.T136_b16_Thyroid_PCW21.2x36mers.hg38.unique.BC_dedup.per_cell_stats