python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Heart-0day-rep1-ATAC-GSM7164788.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Heart-0day-rep1-ATAC-GSM7164788.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Heart-0day-rep1-ATAC-GSM7164788.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Heart-0day-rep2-ATAC-GSM7164789.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Heart-0day-rep2-ATAC-GSM7164789.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Heart-0day-rep2-ATAC-GSM7164789.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Kidney-0day-rep1-ATAC-GSM7164790.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Kidney-0day-rep1-ATAC-GSM7164790.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Kidney-0day-rep1-ATAC-GSM7164790.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Kidney-0day-rep2-ATAC-GSM7164791.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Kidney-0day-rep2-ATAC-GSM7164791.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Kidney-0day-rep2-ATAC-GSM7164791.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Lung-0day-rep1-ATAC-GSM7164792.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Lung-0day-rep1-ATAC-GSM7164792.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Lung-0day-rep1-ATAC-GSM7164792.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Lung-0day-rep2-ATAC-GSM7164793.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Lung-0day-rep2-ATAC-GSM7164793.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Lung-0day-rep2-ATAC-GSM7164793.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Muscle-0day-rep1-ATAC-GSM7164794.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Muscle-0day-rep1-ATAC-GSM7164794.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Muscle-0day-rep1-ATAC-GSM7164794.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Muscle-0day-rep2-ATAC-GSM7164795.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Muscle-0day-rep2-ATAC-GSM7164795.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Muscle-0day-rep2-ATAC-GSM7164795.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Spleen-0day-rep1-ATAC-GSM7164796.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Spleen-0day-rep1-ATAC-GSM7164796.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Spleen-0day-rep1-ATAC-GSM7164796.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Spleen-0day-rep2-ATAC-GSM7164797.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Spleen-0day-rep2-ATAC-GSM7164797.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Spleen-0day-rep2-ATAC-GSM7164797.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Liver-0day-rep1-ATAC-GSM7164798.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Liver-0day-rep1-ATAC-GSM7164798.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Liver-0day-rep1-ATAC-GSM7164798.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Liver-0day-rep2-ATAC-GSM7164799.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Liver-0day-rep2-ATAC-GSM7164799.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Liver-0day-rep2-ATAC-GSM7164799.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Liver-28day-rep1-ATAC-GSM7164800.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Liver-28day-rep1-ATAC-GSM7164800.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Liver-28day-rep1-ATAC-GSM7164800.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Liver-28day-rep2-ATAC-GSM7164801.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Liver-28day-rep2-ATAC-GSM7164801.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Liver-28day-rep2-ATAC-GSM7164801.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Liver-180day-rep1-ATAC-GSM7164802.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Liver-180day-rep1-ATAC-GSM7164802.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Liver-180day-rep1-ATAC-GSM7164802.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py Liver-180day-rep2-ATAC-GSM7164803.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak 0 Liver-180day-rep2-ATAC-GSM7164803.2x36mers.noMT.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Metazoa/Mammals/Sus_scrofa-Sscrofa11.1/Sus_scrofa.Sscrofa11.1.dna.toplevel.chrom.sizes Liver-180day-rep2-ATAC-GSM7164803.2x36mers.noMT.unique.dedup.MACS-2.1.0_peaks.narrowPeak.RPM -RPM -uniqueBAM