python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py 2017-07-17-FrozKera-DMSO-0h.2x36mers.hg19-male.nochrM.dedup.MACS-2.1.0.IDR-ind-reps.IDR0.05-vs-BL-outersection1 0 2017-07-17-FrozKera-DMSO-0h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.chrom.sizes 2017-07-17-FrozKera-DMSO-0h.2x36mers.hg19-male.nochrM.dedup.MACS-2.1.0.IDR-ind-reps.IDR0.05.BL.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py 2017-07-17-FrozKera-DMSO-0h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.IDR-pseudoreps.IDR0.05-vs-BL-outersection1 0 2017-07-17-FrozKera-DMSO-0h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.chrom.sizes 2017-07-17-FrozKera-DMSO-0h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.IDR-pseudoreps.IDR0.05.BL.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py 2017-07-17-FrozKera-DMSO-24h.2x36mers.hg19-male.nochrM.dedup.MACS-2.1.0.IDR-ind-reps.IDR0.05-vs-BL-outersection1 0 2017-07-17-FrozKera-DMSO-24h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.chrom.sizes 2017-07-17-FrozKera-DMSO-24h.2x36mers.hg19-male.nochrM.dedup.MACS-2.1.0.IDR-ind-reps.IDR0.05.BL.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py 2017-07-17-FrozKera-DMSO-24h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.IDR-pseudoreps.IDR0.05-vs-BL-outersection1 0 2017-07-17-FrozKera-DMSO-24h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.chrom.sizes 2017-07-17-FrozKera-DMSO-24h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.IDR-pseudoreps.IDR0.05.BL.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py 2017-07-17-FrozKera-DMSO-24hI.2x36mers.hg19-male.nochrM.dedup.MACS-2.1.0.IDR-ind-reps.IDR0.05-vs-BL-outersection1 0 2017-07-17-FrozKera-DMSO-24hI.2x36mers.hg19-male.nochrM.dedup.merged.sorted.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.chrom.sizes 2017-07-17-FrozKera-DMSO-24hI.2x36mers.hg19-male.nochrM.dedup.MACS-2.1.0.IDR-ind-reps.IDR0.05.BL.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py 2017-07-17-FrozKera-DMSO-24hI.2x36mers.hg19-male.nochrM.dedup.merged.sorted.IDR-pseudoreps.IDR0.05-vs-BL-outersection1 0 2017-07-17-FrozKera-DMSO-24hI.2x36mers.hg19-male.nochrM.dedup.merged.sorted.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.chrom.sizes 2017-07-17-FrozKera-DMSO-24hI.2x36mers.hg19-male.nochrM.dedup.merged.sorted.IDR-pseudoreps.IDR0.05.BL.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py 2017-07-17-FrozKera-DMSO-6h.2x36mers.hg19-male.nochrM.dedup.MACS-2.1.0.IDR-ind-reps.IDR0.05-vs-BL-outersection1 0 2017-07-17-FrozKera-DMSO-6h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.chrom.sizes 2017-07-17-FrozKera-DMSO-6h.2x36mers.hg19-male.nochrM.dedup.MACS-2.1.0.IDR-ind-reps.IDR0.05.BL.RPM -RPM -printSum -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py 2017-07-17-FrozKera-DMSO-6h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.IDR-pseudoreps.IDR0.05-vs-BL-outersection1 0 2017-07-17-FrozKera-DMSO-6h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.chrom.sizes 2017-07-17-FrozKera-DMSO-6h.2x36mers.hg19-male.nochrM.dedup.merged.sorted.IDR-pseudoreps.IDR0.05.BL.RPM -RPM -printSum -uniqueBAM