python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py L225-K562-CRISPRi-15776-a.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.gz 0 L225-K562-CRISPRi-15776-a.2x36mers.hg19-female.unique.nochrM.dedup.bam ~/genomes/hg19/hg19.chrom.sizes L225-K562-CRISPRi-15776-a.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py L226-K562-CRISPRi-15776-b.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.gz 0 L226-K562-CRISPRi-15776-b.2x36mers.hg19-female.unique.nochrM.dedup.bam ~/genomes/hg19/hg19.chrom.sizes L226-K562-CRISPRi-15776-b.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py L227-K562-CRISPRi-15777-a.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.gz 0 L227-K562-CRISPRi-15777-a.2x36mers.hg19-female.unique.nochrM.dedup.bam ~/genomes/hg19/hg19.chrom.sizes L227-K562-CRISPRi-15777-a.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py L228-K562-CRISPRi-15777-b.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.gz 0 L228-K562-CRISPRi-15777-b.2x36mers.hg19-female.unique.nochrM.dedup.bam ~/genomes/hg19/hg19.chrom.sizes L228-K562-CRISPRi-15777-b.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py L223-K562-CRISPRi-N-a.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.gz 0 L223-K562-CRISPRi-N-a.2x36mers.hg19-female.unique.nochrM.dedup.bam ~/genomes/hg19/hg19.chrom.sizes L223-K562-CRISPRi-N-b.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py L224-K562-CRISPRi-N-b.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.gz 0 L224-K562-CRISPRi-N-b.2x36mers.hg19-female.unique.nochrM.dedup.bam ~/genomes/hg19/hg19.chrom.sizes L224-K562-CRISPRi-N-b.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py L229-K562-CRISPRk-N-a.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.gz 0 L229-K562-CRISPRk-N-a.2x36mers.hg19-female.unique.nochrM.dedup.bam ~/genomes/hg19/hg19.chrom.sizes L229-K562-CRISPRk-N-a.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py L230-K562-CRISPRk-N-b.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.gz 0 L230-K562-CRISPRk-N-b.2x36mers.hg19-female.unique.nochrM.dedup.bam ~/genomes/hg19/hg19.chrom.sizes L230-K562-CRISPRk-N-b.2x36mers.hg19-female.unique.nochrM.dedup.MACS2-PE_peaks.narrowPeak.RPM -RPM -printSum -uniqueBAM