python /oak/stanford/groups/akundaje/marinovg/code/SAMstats.py SL217_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.bam SAMstats-SL217_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique -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 SL218_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.bam SAMstats-SL218_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique -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 SL217_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.bam SAMstats-SL217_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique -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 SL218_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.bam SAMstats-SL218_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique -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 SL217_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.bam SAMstats-SL217_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique -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 SL218_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.bam SAMstats-SL218_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique -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 SL217_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.bam SAMstats-SL217_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique -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 SL218_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.bam SAMstats-SL218_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique -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 SL217_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.bam SAMstats-SL217_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique -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 SL218_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.bam SAMstats-SL218_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique -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 SL217_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.bam SAMstats-SL217_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique -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 SL218_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.bam SAMstats-SL218_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique -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 SL217_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.bam SAMstats-SL217_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique -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 SL218_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.bam SAMstats-SL218_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique -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 SL217_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.chrM.bam SAMstats-SL217_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.chrM -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 SL218_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.chrM.bam SAMstats-SL218_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.chrM -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 SL217_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.chrM.bam SAMstats-SL217_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.chrM -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 SL218_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.chrM.bam SAMstats-SL218_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.chrM -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 SL217_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.chrM.bam SAMstats-SL217_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.chrM -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 SL218_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.chrM.bam SAMstats-SL218_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.chrM -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 SL217_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.chrM.bam SAMstats-SL217_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.chrM -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 SL218_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.chrM.bam SAMstats-SL218_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.chrM -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 SL217_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.chrM.bam SAMstats-SL217_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.chrM -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 SL218_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.chrM.bam SAMstats-SL218_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.chrM -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 SL217_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.chrM.bam SAMstats-SL217_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.chrM -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 SL218_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.chrM.bam SAMstats-SL218_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.chrM -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 SL217_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.chrM.bam SAMstats-SL217_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.chrM -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 SL218_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.chrM.bam SAMstats-SL218_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.chrM -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/PEInsertDistFromBAM.py SL217_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL218_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL217_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL218_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL217_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL218_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL217_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL218_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL217_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL218_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL217_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL218_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL217_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py SL218_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.InsLen -uniqueBAM -normalize &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL217_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL218_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL217_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL218_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL217_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL218_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL217_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL218_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL217_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL218_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL217_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL218_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL217_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- SL218_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.wig -notitle -RPM -uniqueBAM &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL217_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL218_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T166_b15_Liver_PCW19.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL217_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL218_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T235_b15_Liver_PCW21.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL217_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL218_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T275_b15_Liver_PCW18.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL217_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL218_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T350_b15_Liver_PCW21.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL217_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL218_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T375_b15_Liver_PCW15.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL217_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL218_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T398_b15_Liver_PCW17.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL217_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL217_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.BC_dedup.bam -addBC &
python /oak/stanford/groups/akundaje/marinovg/code/single-cell-RNA-seq/SHARE-seq_ATAC_dedup-V2.py SL218_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg38/hg38.chrom.sizes SL218_b15_ATAC_LiverRedo.T71_b15_Liver_PCW18.2x36mers.hg38.unique.BC_dedup.bam -addBC &