python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L10-MS80-AB21/180718-L10-MS80-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L10-MS80-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L11-MS81-input/180718-L11-MS81-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L11-MS81-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L12-MS81-input-2/180718-L12-MS81-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L12-MS81-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L13-MS81-AB5/180718-L13-MS81-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L13-MS81-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L14-MS81-AB20/180718-L14-MS81-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L14-MS81-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L15-MS81-AB21/180718-L15-MS81-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L15-MS81-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L16-MS63-0nM-input/180718-L16-MS63-0nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L16-MS63-0nM-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L17-MS63-0nM-input-2/180718-L17-MS63-0nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L17-MS63-0nM-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L18-MS63-0nM-AB5/180718-L18-MS63-0nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L18-MS63-0nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L19-MS63-0nM-AB20/180718-L19-MS63-0nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L19-MS63-0nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L1-MS1-input/180718-L1-MS1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L1-MS1-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L20-MS63-0nM-AB21/180718-L20-MS63-0nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L20-MS63-0nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L21-MS63-10nM-input/180718-L21-MS63-10nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L21-MS63-10nM-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L22-MS63-10nM-input-2/180718-L22-MS63-10nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L22-MS63-10nM-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L23-MS63-10nM-AB5/180718-L23-MS63-10nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L23-MS63-10nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L24-MS63-10nM-AB20/180718-L24-MS63-10nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L24-MS63-10nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L25-MS63-10nM-AB21/180718-L25-MS63-10nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L25-MS63-10nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L26-MS63-30nM-input/180718-L26-MS63-30nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L26-MS63-30nM-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L27-MS63-30nM-input-2/180718-L27-MS63-30nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L27-MS63-30nM-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L28-MS63-30nM-AB5/180718-L28-MS63-30nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L28-MS63-30nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L29-MS63-30nM-AB20/180718-L29-MS63-30nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L29-MS63-30nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L2-MS1-input-2/180718-L2-MS1-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L2-MS1-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L30-MS63-30nM-AB21/180718-L30-MS63-30nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L30-MS63-30nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L3-MS1-AB5/180718-L3-MS1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L3-MS1-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L4-MS1-AB20/180718-L4-MS1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L4-MS1-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L5-MS1-AB21/180718-L5-MS1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L5-MS1-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L6-MS80-input/180718-L6-MS80-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L6-MS80-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L7-MS80-input-2/180718-L7-MS80-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L7-MS80-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L8-MS80-AB5/180718-L8-MS80-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L8-MS80-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L9-MS80-AB20/180718-L9-MS80-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L9-MS80-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L10-MS63-10nM-AB5/180723-L10-MS63-10nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L10-MS63-10nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L11-MS63-10nM-AB20/180723-L11-MS63-10nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L11-MS63-10nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L12-MS63-10nM-AB21/180723-L12-MS63-10nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L12-MS63-10nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L13-MS63-30nM-input2/180723-L13-MS63-30nM-input2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L13-MS63-30nM-input2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L14-MS63-30nM-AB1/180723-L14-MS63-30nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L14-MS63-30nM-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L15-MS63-30nM-AB4/180723-L15-MS63-30nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L15-MS63-30nM-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L16-MS63-30nM-AB5/180723-L16-MS63-30nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L16-MS63-30nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L17-MS63-30nM-AB20/180723-L17-MS63-30nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L17-MS63-30nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L18-MS63-30nM-AB21/180723-L18-MS63-30nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L18-MS63-30nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L1-MS63-0nM-input1/180723-L1-MS63-0nM-input1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L1-MS63-0nM-input1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L2-MS63-0nM-AB1/180723-L2-MS63-0nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L2-MS63-0nM-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L3-MS63-0nM-AB4/180723-L3-MS63-0nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L3-MS63-0nM-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L4-MS63-0nM-AB5/180723-L4-MS63-0nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L4-MS63-0nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L5-MS63-0nM-AB20/180723-L5-MS63-0nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L5-MS63-0nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L6-MS63-0nM-AB21/180723-L6-MS63-0nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L6-MS63-0nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L7-MS63-10nM-input2/180723-L7-MS63-10nM-input2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L7-MS63-10nM-input2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L8-MS63-10nM-AB1/180723-L8-MS63-10nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L8-MS63-10nM-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L9-MS63-10nM-AB4/180723-L9-MS63-10nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L9-MS63-10nM-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L10-MS80-AB5/180731-L10-MS80-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L10-MS80-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L11-MS80-AB20/180731-L11-MS80-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L11-MS80-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L12-MS80-AB21/180731-L12-MS80-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L12-MS80-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L13-MS81-input/180731-L13-MS81-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L13-MS81-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L14-MS81-AB1/180731-L14-MS81-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L14-MS81-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L15-MS81-AB4/180731-L15-MS81-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L15-MS81-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L16-MS81-AB5/180731-L16-MS81-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L16-MS81-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L17-MS81-AB20/180731-L17-MS81-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L17-MS81-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L18-MS81-AB21/180731-L18-MS81-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L18-MS81-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L19-MS55-1-input/180731-L19-MS55-1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L19-MS55-1-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L1-MS1-input/180731-L1-MS1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L1-MS1-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L20-MS55-1-AB1/180731-L20-MS55-1-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L20-MS55-1-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L21-MS55-1-AB4/180731-L21-MS55-1-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L21-MS55-1-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L22-MS55-1-AB5/180731-L22-MS55-1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L22-MS55-1-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L23-MS55-1-AB20/180731-L23-MS55-1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L23-MS55-1-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L24-MS55-1-AB21/180731-L24-MS55-1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L24-MS55-1-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L25-MS55-2-input/180731-L25-MS55-2-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L25-MS55-2-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L26-MS55-2-AB1/180731-L26-MS55-2-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L26-MS55-2-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L27-MS55-2-AB4/180731-L27-MS55-2-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L27-MS55-2-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L28-MS55-2-AB5/180731-L28-MS55-2-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L28-MS55-2-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L29-MS55-2-AB20/180731-L29-MS55-2-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L29-MS55-2-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L2-MS1-AB1/180731-L2-MS1-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L2-MS1-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L30-MS55-2-AB21/180731-L30-MS55-2-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L30-MS55-2-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L31-MS55-3-input/180731-L31-MS55-3-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L31-MS55-3-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L32-MS55-3-AB1/180731-L32-MS55-3-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L32-MS55-3-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L33-MS55-3-AB4/180731-L33-MS55-3-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L33-MS55-3-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L34-MS55-3-AB5/180731-L34-MS55-3-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L34-MS55-3-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L35-MS55-3-AB20/180731-L35-MS55-3-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L35-MS55-3-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L36-MS55-3-AB21/180731-L36-MS55-3-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L36-MS55-3-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L37-MS55-4-input/180731-L37-MS55-4-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L37-MS55-4-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L38-MS55-4-AB1/180731-L38-MS55-4-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L38-MS55-4-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L39-MS55-4-AB4/180731-L39-MS55-4-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L39-MS55-4-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L3-MS1-AB4/180731-L3-MS1-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L3-MS1-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L40-MS55-4-AB5/180731-L40-MS55-4-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L40-MS55-4-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L41-MS55-4-AB20/180731-L41-MS55-4-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L41-MS55-4-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L42-MS55-4-AB21/180731-L42-MS55-4-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L42-MS55-4-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L4-MS1-AB5/180731-L4-MS1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L4-MS1-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L5-MS1-AB20/180731-L5-MS1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L5-MS1-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L6-MS1-AB21/180731-L6-MS1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L6-MS1-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L7-MS80-input/180731-L7-MS80-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L7-MS80-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L8-MS80-AB1/180731-L8-MS80-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L8-MS80-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L9-MS80-AB4/180731-L9-MS80-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L9-MS80-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L10-MS80-AB21/180718-L10-MS80-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L10-MS80-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L11-MS81-input/180718-L11-MS81-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L11-MS81-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L12-MS81-input-2/180718-L12-MS81-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L12-MS81-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L13-MS81-AB5/180718-L13-MS81-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L13-MS81-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L14-MS81-AB20/180718-L14-MS81-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L14-MS81-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L15-MS81-AB21/180718-L15-MS81-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L15-MS81-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L16-MS63-0nM-input/180718-L16-MS63-0nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L16-MS63-0nM-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L17-MS63-0nM-input-2/180718-L17-MS63-0nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L17-MS63-0nM-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L18-MS63-0nM-AB5/180718-L18-MS63-0nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L18-MS63-0nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L19-MS63-0nM-AB20/180718-L19-MS63-0nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L19-MS63-0nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L1-MS1-input/180718-L1-MS1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L1-MS1-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L20-MS63-0nM-AB21/180718-L20-MS63-0nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L20-MS63-0nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L21-MS63-10nM-input/180718-L21-MS63-10nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L21-MS63-10nM-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L22-MS63-10nM-input-2/180718-L22-MS63-10nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L22-MS63-10nM-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L23-MS63-10nM-AB5/180718-L23-MS63-10nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L23-MS63-10nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L24-MS63-10nM-AB20/180718-L24-MS63-10nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L24-MS63-10nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L25-MS63-10nM-AB21/180718-L25-MS63-10nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L25-MS63-10nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L26-MS63-30nM-input/180718-L26-MS63-30nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L26-MS63-30nM-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L27-MS63-30nM-input-2/180718-L27-MS63-30nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L27-MS63-30nM-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L28-MS63-30nM-AB5/180718-L28-MS63-30nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L28-MS63-30nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L29-MS63-30nM-AB20/180718-L29-MS63-30nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L29-MS63-30nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L2-MS1-input-2/180718-L2-MS1-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L2-MS1-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L30-MS63-30nM-AB21/180718-L30-MS63-30nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L30-MS63-30nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L3-MS1-AB5/180718-L3-MS1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L3-MS1-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L4-MS1-AB20/180718-L4-MS1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L4-MS1-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L5-MS1-AB21/180718-L5-MS1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L5-MS1-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L6-MS80-input/180718-L6-MS80-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L6-MS80-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L7-MS80-input-2/180718-L7-MS80-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L7-MS80-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L8-MS80-AB5/180718-L8-MS80-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L8-MS80-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L9-MS80-AB20/180718-L9-MS80-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180718-L9-MS80-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L10-MS63-10nM-AB5/180723-L10-MS63-10nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L10-MS63-10nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L11-MS63-10nM-AB20/180723-L11-MS63-10nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L11-MS63-10nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L12-MS63-10nM-AB21/180723-L12-MS63-10nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L12-MS63-10nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L13-MS63-30nM-input2/180723-L13-MS63-30nM-input2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L13-MS63-30nM-input2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L14-MS63-30nM-AB1/180723-L14-MS63-30nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L14-MS63-30nM-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L15-MS63-30nM-AB4/180723-L15-MS63-30nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L15-MS63-30nM-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L16-MS63-30nM-AB5/180723-L16-MS63-30nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L16-MS63-30nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L17-MS63-30nM-AB20/180723-L17-MS63-30nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L17-MS63-30nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L18-MS63-30nM-AB21/180723-L18-MS63-30nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L18-MS63-30nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L1-MS63-0nM-input1/180723-L1-MS63-0nM-input1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L1-MS63-0nM-input1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L2-MS63-0nM-AB1/180723-L2-MS63-0nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L2-MS63-0nM-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L3-MS63-0nM-AB4/180723-L3-MS63-0nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L3-MS63-0nM-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L4-MS63-0nM-AB5/180723-L4-MS63-0nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L4-MS63-0nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L5-MS63-0nM-AB20/180723-L5-MS63-0nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L5-MS63-0nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L6-MS63-0nM-AB21/180723-L6-MS63-0nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L6-MS63-0nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L7-MS63-10nM-input2/180723-L7-MS63-10nM-input2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L7-MS63-10nM-input2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L8-MS63-10nM-AB1/180723-L8-MS63-10nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L8-MS63-10nM-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L9-MS63-10nM-AB4/180723-L9-MS63-10nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180723-L9-MS63-10nM-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L10-MS80-AB5/180731-L10-MS80-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L10-MS80-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L11-MS80-AB20/180731-L11-MS80-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L11-MS80-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L12-MS80-AB21/180731-L12-MS80-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L12-MS80-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L13-MS81-input/180731-L13-MS81-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L13-MS81-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L14-MS81-AB1/180731-L14-MS81-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L14-MS81-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L15-MS81-AB4/180731-L15-MS81-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L15-MS81-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L16-MS81-AB5/180731-L16-MS81-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L16-MS81-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L17-MS81-AB20/180731-L17-MS81-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L17-MS81-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L18-MS81-AB21/180731-L18-MS81-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L18-MS81-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L19-MS55-1-input/180731-L19-MS55-1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L19-MS55-1-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L1-MS1-input/180731-L1-MS1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L1-MS1-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L20-MS55-1-AB1/180731-L20-MS55-1-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L20-MS55-1-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L21-MS55-1-AB4/180731-L21-MS55-1-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L21-MS55-1-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L22-MS55-1-AB5/180731-L22-MS55-1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L22-MS55-1-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L23-MS55-1-AB20/180731-L23-MS55-1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L23-MS55-1-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L24-MS55-1-AB21/180731-L24-MS55-1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L24-MS55-1-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L25-MS55-2-input/180731-L25-MS55-2-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L25-MS55-2-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L26-MS55-2-AB1/180731-L26-MS55-2-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L26-MS55-2-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L27-MS55-2-AB4/180731-L27-MS55-2-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L27-MS55-2-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L28-MS55-2-AB5/180731-L28-MS55-2-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L28-MS55-2-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L29-MS55-2-AB20/180731-L29-MS55-2-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L29-MS55-2-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L2-MS1-AB1/180731-L2-MS1-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L2-MS1-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L30-MS55-2-AB21/180731-L30-MS55-2-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L30-MS55-2-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L31-MS55-3-input/180731-L31-MS55-3-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L31-MS55-3-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L32-MS55-3-AB1/180731-L32-MS55-3-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L32-MS55-3-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L33-MS55-3-AB4/180731-L33-MS55-3-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L33-MS55-3-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L34-MS55-3-AB5/180731-L34-MS55-3-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L34-MS55-3-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L35-MS55-3-AB20/180731-L35-MS55-3-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L35-MS55-3-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L36-MS55-3-AB21/180731-L36-MS55-3-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L36-MS55-3-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L37-MS55-4-input/180731-L37-MS55-4-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L37-MS55-4-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L38-MS55-4-AB1/180731-L38-MS55-4-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L38-MS55-4-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L39-MS55-4-AB4/180731-L39-MS55-4-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L39-MS55-4-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L3-MS1-AB4/180731-L3-MS1-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L3-MS1-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L40-MS55-4-AB5/180731-L40-MS55-4-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L40-MS55-4-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L41-MS55-4-AB20/180731-L41-MS55-4-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L41-MS55-4-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L42-MS55-4-AB21/180731-L42-MS55-4-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L42-MS55-4-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L4-MS1-AB5/180731-L4-MS1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L4-MS1-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L5-MS1-AB20/180731-L5-MS1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L5-MS1-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L6-MS1-AB21/180731-L6-MS1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L6-MS1-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L7-MS80-input/180731-L7-MS80-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L7-MS80-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L8-MS80-AB1/180731-L8-MS80-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L8-MS80-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.500bp_ext.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L9-MS80-AB4/180731-L9-MS80-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.500bp_ext.180731-L9-MS80-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L10-MS80-AB21/180718-L10-MS80-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L10-MS80-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L11-MS81-input/180718-L11-MS81-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L11-MS81-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L12-MS81-input-2/180718-L12-MS81-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L12-MS81-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L13-MS81-AB5/180718-L13-MS81-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L13-MS81-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L14-MS81-AB20/180718-L14-MS81-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L14-MS81-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L15-MS81-AB21/180718-L15-MS81-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L15-MS81-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L16-MS63-0nM-input/180718-L16-MS63-0nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L16-MS63-0nM-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L17-MS63-0nM-input-2/180718-L17-MS63-0nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L17-MS63-0nM-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L18-MS63-0nM-AB5/180718-L18-MS63-0nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L18-MS63-0nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L19-MS63-0nM-AB20/180718-L19-MS63-0nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L19-MS63-0nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L1-MS1-input/180718-L1-MS1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L1-MS1-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L20-MS63-0nM-AB21/180718-L20-MS63-0nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L20-MS63-0nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L21-MS63-10nM-input/180718-L21-MS63-10nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L21-MS63-10nM-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L22-MS63-10nM-input-2/180718-L22-MS63-10nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L22-MS63-10nM-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L23-MS63-10nM-AB5/180718-L23-MS63-10nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L23-MS63-10nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L24-MS63-10nM-AB20/180718-L24-MS63-10nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L24-MS63-10nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L25-MS63-10nM-AB21/180718-L25-MS63-10nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L25-MS63-10nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L26-MS63-30nM-input/180718-L26-MS63-30nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L26-MS63-30nM-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L27-MS63-30nM-input-2/180718-L27-MS63-30nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L27-MS63-30nM-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L28-MS63-30nM-AB5/180718-L28-MS63-30nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L28-MS63-30nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L29-MS63-30nM-AB20/180718-L29-MS63-30nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L29-MS63-30nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L2-MS1-input-2/180718-L2-MS1-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L2-MS1-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L30-MS63-30nM-AB21/180718-L30-MS63-30nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L30-MS63-30nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L3-MS1-AB5/180718-L3-MS1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L3-MS1-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L4-MS1-AB20/180718-L4-MS1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L4-MS1-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L5-MS1-AB21/180718-L5-MS1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L5-MS1-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L6-MS80-input/180718-L6-MS80-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L6-MS80-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L7-MS80-input-2/180718-L7-MS80-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L7-MS80-input-2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L8-MS80-AB5/180718-L8-MS80-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L8-MS80-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L9-MS80-AB20/180718-L9-MS80-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L9-MS80-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L10-MS63-10nM-AB5/180723-L10-MS63-10nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L10-MS63-10nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L11-MS63-10nM-AB20/180723-L11-MS63-10nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L11-MS63-10nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L12-MS63-10nM-AB21/180723-L12-MS63-10nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L12-MS63-10nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L13-MS63-30nM-input2/180723-L13-MS63-30nM-input2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L13-MS63-30nM-input2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L14-MS63-30nM-AB1/180723-L14-MS63-30nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L14-MS63-30nM-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L15-MS63-30nM-AB4/180723-L15-MS63-30nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L15-MS63-30nM-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L16-MS63-30nM-AB5/180723-L16-MS63-30nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L16-MS63-30nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L17-MS63-30nM-AB20/180723-L17-MS63-30nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L17-MS63-30nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L18-MS63-30nM-AB21/180723-L18-MS63-30nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L18-MS63-30nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L1-MS63-0nM-input1/180723-L1-MS63-0nM-input1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L1-MS63-0nM-input1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L2-MS63-0nM-AB1/180723-L2-MS63-0nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L2-MS63-0nM-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L3-MS63-0nM-AB4/180723-L3-MS63-0nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L3-MS63-0nM-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L4-MS63-0nM-AB5/180723-L4-MS63-0nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L4-MS63-0nM-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L5-MS63-0nM-AB20/180723-L5-MS63-0nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L5-MS63-0nM-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L6-MS63-0nM-AB21/180723-L6-MS63-0nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L6-MS63-0nM-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L7-MS63-10nM-input2/180723-L7-MS63-10nM-input2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L7-MS63-10nM-input2.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L8-MS63-10nM-AB1/180723-L8-MS63-10nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L8-MS63-10nM-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L9-MS63-10nM-AB4/180723-L9-MS63-10nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L9-MS63-10nM-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L10-MS80-AB5/180731-L10-MS80-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L10-MS80-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L11-MS80-AB20/180731-L11-MS80-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L11-MS80-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L12-MS80-AB21/180731-L12-MS80-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L12-MS80-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L13-MS81-input/180731-L13-MS81-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L13-MS81-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L14-MS81-AB1/180731-L14-MS81-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L14-MS81-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L15-MS81-AB4/180731-L15-MS81-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L15-MS81-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L16-MS81-AB5/180731-L16-MS81-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L16-MS81-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L17-MS81-AB20/180731-L17-MS81-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L17-MS81-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L18-MS81-AB21/180731-L18-MS81-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L18-MS81-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L19-MS55-1-input/180731-L19-MS55-1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L19-MS55-1-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L1-MS1-input/180731-L1-MS1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L1-MS1-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L20-MS55-1-AB1/180731-L20-MS55-1-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L20-MS55-1-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L21-MS55-1-AB4/180731-L21-MS55-1-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L21-MS55-1-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L22-MS55-1-AB5/180731-L22-MS55-1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L22-MS55-1-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L23-MS55-1-AB20/180731-L23-MS55-1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L23-MS55-1-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L24-MS55-1-AB21/180731-L24-MS55-1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L24-MS55-1-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L25-MS55-2-input/180731-L25-MS55-2-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L25-MS55-2-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L26-MS55-2-AB1/180731-L26-MS55-2-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L26-MS55-2-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L27-MS55-2-AB4/180731-L27-MS55-2-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L27-MS55-2-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L28-MS55-2-AB5/180731-L28-MS55-2-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L28-MS55-2-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L29-MS55-2-AB20/180731-L29-MS55-2-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L29-MS55-2-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L2-MS1-AB1/180731-L2-MS1-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L2-MS1-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L30-MS55-2-AB21/180731-L30-MS55-2-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L30-MS55-2-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L31-MS55-3-input/180731-L31-MS55-3-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L31-MS55-3-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L32-MS55-3-AB1/180731-L32-MS55-3-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L32-MS55-3-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L33-MS55-3-AB4/180731-L33-MS55-3-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L33-MS55-3-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L34-MS55-3-AB5/180731-L34-MS55-3-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L34-MS55-3-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L35-MS55-3-AB20/180731-L35-MS55-3-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L35-MS55-3-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L36-MS55-3-AB21/180731-L36-MS55-3-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L36-MS55-3-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L37-MS55-4-input/180731-L37-MS55-4-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L37-MS55-4-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L38-MS55-4-AB1/180731-L38-MS55-4-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L38-MS55-4-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L39-MS55-4-AB4/180731-L39-MS55-4-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L39-MS55-4-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L3-MS1-AB4/180731-L3-MS1-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L3-MS1-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L40-MS55-4-AB5/180731-L40-MS55-4-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L40-MS55-4-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L41-MS55-4-AB20/180731-L41-MS55-4-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L41-MS55-4-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L42-MS55-4-AB21/180731-L42-MS55-4-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L42-MS55-4-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L4-MS1-AB5/180731-L4-MS1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L4-MS1-AB5.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L5-MS1-AB20/180731-L5-MS1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L5-MS1-AB20.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L6-MS1-AB21/180731-L6-MS1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L6-MS1-AB21.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L7-MS80-input/180731-L7-MS80-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L7-MS80-input.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L8-MS80-AB1/180731-L8-MS80-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L8-MS80-AB1.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L9-MS80-AB4/180731-L9-MS80-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L9-MS80-AB4.1x36mers.unique.nochrM.RPM -RPM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L10-MS80-AB21/180718-L10-MS80-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L10-MS80-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L11-MS81-input/180718-L11-MS81-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L11-MS81-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L12-MS81-input-2/180718-L12-MS81-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L12-MS81-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L13-MS81-AB5/180718-L13-MS81-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L13-MS81-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L14-MS81-AB20/180718-L14-MS81-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L14-MS81-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L15-MS81-AB21/180718-L15-MS81-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L15-MS81-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L16-MS63-0nM-input/180718-L16-MS63-0nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L16-MS63-0nM-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L17-MS63-0nM-input-2/180718-L17-MS63-0nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L17-MS63-0nM-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L18-MS63-0nM-AB5/180718-L18-MS63-0nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L18-MS63-0nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L19-MS63-0nM-AB20/180718-L19-MS63-0nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L19-MS63-0nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L1-MS1-input/180718-L1-MS1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L1-MS1-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L20-MS63-0nM-AB21/180718-L20-MS63-0nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L20-MS63-0nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L21-MS63-10nM-input/180718-L21-MS63-10nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L21-MS63-10nM-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L22-MS63-10nM-input-2/180718-L22-MS63-10nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L22-MS63-10nM-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L23-MS63-10nM-AB5/180718-L23-MS63-10nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L23-MS63-10nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L24-MS63-10nM-AB20/180718-L24-MS63-10nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L24-MS63-10nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L25-MS63-10nM-AB21/180718-L25-MS63-10nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L25-MS63-10nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L26-MS63-30nM-input/180718-L26-MS63-30nM-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L26-MS63-30nM-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L27-MS63-30nM-input-2/180718-L27-MS63-30nM-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L27-MS63-30nM-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L28-MS63-30nM-AB5/180718-L28-MS63-30nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L28-MS63-30nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L29-MS63-30nM-AB20/180718-L29-MS63-30nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L29-MS63-30nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L2-MS1-input-2/180718-L2-MS1-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L2-MS1-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L30-MS63-30nM-AB21/180718-L30-MS63-30nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L30-MS63-30nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L3-MS1-AB5/180718-L3-MS1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L3-MS1-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L4-MS1-AB20/180718-L4-MS1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L4-MS1-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L5-MS1-AB21/180718-L5-MS1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L5-MS1-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L6-MS80-input/180718-L6-MS80-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L6-MS80-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L7-MS80-input-2/180718-L7-MS80-input-2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L7-MS80-input-2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L8-MS80-AB5/180718-L8-MS80-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L8-MS80-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180718-L9-MS80-AB20/180718-L9-MS80-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180718-L9-MS80-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L10-MS63-10nM-AB5/180723-L10-MS63-10nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L10-MS63-10nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L11-MS63-10nM-AB20/180723-L11-MS63-10nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L11-MS63-10nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L12-MS63-10nM-AB21/180723-L12-MS63-10nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L12-MS63-10nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L13-MS63-30nM-input2/180723-L13-MS63-30nM-input2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L13-MS63-30nM-input2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L14-MS63-30nM-AB1/180723-L14-MS63-30nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L14-MS63-30nM-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L15-MS63-30nM-AB4/180723-L15-MS63-30nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L15-MS63-30nM-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L16-MS63-30nM-AB5/180723-L16-MS63-30nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L16-MS63-30nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L17-MS63-30nM-AB20/180723-L17-MS63-30nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L17-MS63-30nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L18-MS63-30nM-AB21/180723-L18-MS63-30nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L18-MS63-30nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L1-MS63-0nM-input1/180723-L1-MS63-0nM-input1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L1-MS63-0nM-input1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L2-MS63-0nM-AB1/180723-L2-MS63-0nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L2-MS63-0nM-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L3-MS63-0nM-AB4/180723-L3-MS63-0nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L3-MS63-0nM-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L4-MS63-0nM-AB5/180723-L4-MS63-0nM-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L4-MS63-0nM-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L5-MS63-0nM-AB20/180723-L5-MS63-0nM-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L5-MS63-0nM-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L6-MS63-0nM-AB21/180723-L6-MS63-0nM-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L6-MS63-0nM-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L7-MS63-10nM-input2/180723-L7-MS63-10nM-input2.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L7-MS63-10nM-input2.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L8-MS63-10nM-AB1/180723-L8-MS63-10nM-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L8-MS63-10nM-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180723-L9-MS63-10nM-AB4/180723-L9-MS63-10nM-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180723-L9-MS63-10nM-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L10-MS80-AB5/180731-L10-MS80-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L10-MS80-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L11-MS80-AB20/180731-L11-MS80-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L11-MS80-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L12-MS80-AB21/180731-L12-MS80-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L12-MS80-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L13-MS81-input/180731-L13-MS81-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L13-MS81-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L14-MS81-AB1/180731-L14-MS81-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L14-MS81-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L15-MS81-AB4/180731-L15-MS81-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L15-MS81-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L16-MS81-AB5/180731-L16-MS81-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L16-MS81-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L17-MS81-AB20/180731-L17-MS81-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L17-MS81-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L18-MS81-AB21/180731-L18-MS81-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L18-MS81-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L19-MS55-1-input/180731-L19-MS55-1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L19-MS55-1-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L1-MS1-input/180731-L1-MS1-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L1-MS1-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L20-MS55-1-AB1/180731-L20-MS55-1-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L20-MS55-1-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L21-MS55-1-AB4/180731-L21-MS55-1-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L21-MS55-1-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L22-MS55-1-AB5/180731-L22-MS55-1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L22-MS55-1-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L23-MS55-1-AB20/180731-L23-MS55-1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L23-MS55-1-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L24-MS55-1-AB21/180731-L24-MS55-1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L24-MS55-1-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L25-MS55-2-input/180731-L25-MS55-2-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L25-MS55-2-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L26-MS55-2-AB1/180731-L26-MS55-2-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L26-MS55-2-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L27-MS55-2-AB4/180731-L27-MS55-2-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L27-MS55-2-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L28-MS55-2-AB5/180731-L28-MS55-2-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L28-MS55-2-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L29-MS55-2-AB20/180731-L29-MS55-2-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L29-MS55-2-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L2-MS1-AB1/180731-L2-MS1-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L2-MS1-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L30-MS55-2-AB21/180731-L30-MS55-2-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L30-MS55-2-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L31-MS55-3-input/180731-L31-MS55-3-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L31-MS55-3-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L32-MS55-3-AB1/180731-L32-MS55-3-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L32-MS55-3-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L33-MS55-3-AB4/180731-L33-MS55-3-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L33-MS55-3-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L34-MS55-3-AB5/180731-L34-MS55-3-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L34-MS55-3-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L35-MS55-3-AB20/180731-L35-MS55-3-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L35-MS55-3-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L36-MS55-3-AB21/180731-L36-MS55-3-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L36-MS55-3-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L37-MS55-4-input/180731-L37-MS55-4-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L37-MS55-4-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L38-MS55-4-AB1/180731-L38-MS55-4-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L38-MS55-4-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L39-MS55-4-AB4/180731-L39-MS55-4-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L39-MS55-4-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L3-MS1-AB4/180731-L3-MS1-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L3-MS1-AB4.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L40-MS55-4-AB5/180731-L40-MS55-4-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L40-MS55-4-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L41-MS55-4-AB20/180731-L41-MS55-4-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L41-MS55-4-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L42-MS55-4-AB21/180731-L42-MS55-4-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L42-MS55-4-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L4-MS1-AB5/180731-L4-MS1-AB5.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L4-MS1-AB5.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L5-MS1-AB20/180731-L5-MS1-AB20.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L5-MS1-AB20.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L6-MS1-AB21/180731-L6-MS1-AB21.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L6-MS1-AB21.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L7-MS80-input/180731-L7-MS80-input.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L7-MS80-input.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L8-MS80-AB1/180731-L8-MS80-AB1.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L8-MS80-AB1.1x36mers.unique.nochrM.RPKM &
python ~/code/bedRPKMfromBAM.py ../2018-06-25-genes-RPKMs/Saccharomyces_cerevisiae.SacCer_Apr2011.20.genes.renamed 0 /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/2017/datasets-ChIP/2018-09-13-180731-L9-MS80-AB4/180731-L9-MS80-AB4.1x36mers.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.chrom.sizes gene.180731-L9-MS80-AB4.1x36mers.unique.nochrM.RPKM &