python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L01_exp250704_RPE1_5:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L01_exp250704_RPE1_5:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.dm6 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/dm6.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L02_exp250704_RPE1_10:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L02_exp250704_RPE1_10:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.dm6 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/dm6.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L03_exp250704_RPE1_20:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L03_exp250704_RPE1_20:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.dm6 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/dm6.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L04_exp250704_RPE1_5:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L04_exp250704_RPE1_5:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.dm6 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/dm6.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L05_exp250704_RPE1_10:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L05_exp250704_RPE1_10:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.dm6 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/dm6.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L06_exp250704_RPE1_20:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L06_exp250704_RPE1_20:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.dm6 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/dm6.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L01_exp250704_RPE1_5:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L01_exp250704_RPE1_5:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.hg38 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L02_exp250704_RPE1_10:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L02_exp250704_RPE1_10:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.hg38 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L03_exp250704_RPE1_20:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L03_exp250704_RPE1_20:1-S2-ratio_INPUT.2x36mers.hg38+dm6.unique.hg38 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L04_exp250704_RPE1_5:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L04_exp250704_RPE1_5:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.hg38 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L05_exp250704_RPE1_10:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L05_exp250704_RPE1_10:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.hg38 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired
python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py 2025-07-29-MS250708L06_exp250704_RPE1_20:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.bam SAMstats-2025-07-29-MS250708L06_exp250704_RPE1_20:1-S2-ratio_Rpb1-CTD-ChIP.2x36mers.hg38+dm6.unique.hg38 -bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38+dm6/hg38.chrom.sizes /oak/stanford/groups/akundaje/marinovg/programs/samtools-0.1.18/samtools -paired