python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 Cln3-MS49-SCD-rep1_S8.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.Cln3-MS49-SCD-rep1_S8.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 Cln3-MS49-SCD-rep2_S11.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.Cln3-MS49-SCD-rep2_S11.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 Cln3-MS49-SCE-rep1_S2.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.Cln3-MS49-SCE-rep1_S2.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 Cln3-MS49-SCE-rep2_S5.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.Cln3-MS49-SCE-rep2_S5.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 Whi5-MS51-SCD-rep1_S9.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.Whi5-MS51-SCD-rep1_S9.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 Whi5-MS51-SCD-rep2_S12.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.Whi5-MS51-SCD-rep2_S12.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 Whi5-MS51-SCE-rep1_S3.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.Whi5-MS51-SCE-rep1_S3.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 Whi5-MS51-SCE-rep2_S6.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.Whi5-MS51-SCE-rep2_S6.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 WT-MS1-SCD-rep1_S7.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.WT-MS1-SCD-rep1_S7.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 WT-MS1-SCD-rep2_S10.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.WT-MS1-SCD-rep2_S10.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 WT-MS1-SCE-rep1_S1.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.WT-MS1-SCE-rep1_S1.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.500bp.table 0 WT-MS1-SCE-rep2_S4.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.500bp.table.WT-MS1-SCE-rep2_S4.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 Cln3-MS49-SCD-rep1_S8.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.Cln3-MS49-SCD-rep1_S8.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 Cln3-MS49-SCD-rep2_S11.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.Cln3-MS49-SCD-rep2_S11.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 Cln3-MS49-SCE-rep1_S2.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.Cln3-MS49-SCE-rep1_S2.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 Cln3-MS49-SCE-rep2_S5.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.Cln3-MS49-SCE-rep2_S5.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 Whi5-MS51-SCD-rep1_S9.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.Whi5-MS51-SCD-rep1_S9.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 Whi5-MS51-SCD-rep2_S12.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.Whi5-MS51-SCD-rep2_S12.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 Whi5-MS51-SCE-rep1_S3.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.Whi5-MS51-SCE-rep1_S3.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 Whi5-MS51-SCE-rep2_S6.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.Whi5-MS51-SCE-rep2_S6.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 WT-MS1-SCD-rep1_S7.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.WT-MS1-SCD-rep1_S7.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 WT-MS1-SCD-rep2_S10.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.WT-MS1-SCD-rep2_S10.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 WT-MS1-SCE-rep1_S1.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.WT-MS1-SCE-rep1_S1.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.500merge.200bp.table 0 WT-MS1-SCE-rep2_S4.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.500merge.200bp.table.WT-MS1-SCE-rep2_S4.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 Cln3-MS49-SCD-rep1_S8.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.Cln3-MS49-SCD-rep1_S8.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 Cln3-MS49-SCD-rep2_S11.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.Cln3-MS49-SCD-rep2_S11.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 Cln3-MS49-SCE-rep1_S2.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.Cln3-MS49-SCE-rep1_S2.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 Cln3-MS49-SCE-rep2_S5.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.Cln3-MS49-SCE-rep2_S5.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 Whi5-MS51-SCD-rep1_S9.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.Whi5-MS51-SCD-rep1_S9.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 Whi5-MS51-SCD-rep2_S12.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.Whi5-MS51-SCD-rep2_S12.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 Whi5-MS51-SCE-rep1_S3.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.Whi5-MS51-SCE-rep1_S3.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 Whi5-MS51-SCE-rep2_S6.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.Whi5-MS51-SCE-rep2_S6.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 WT-MS1-SCD-rep1_S7.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.WT-MS1-SCD-rep1_S7.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 WT-MS1-SCD-rep2_S10.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.WT-MS1-SCD-rep2_S10.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 WT-MS1-SCE-rep1_S1.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.WT-MS1-SCE-rep1_S1.RPM -singleFieldRegion -uniqueBAM
python /oak/stanford/groups/akundaje/marinovg/code/bedRPKMfromBAM.py post-IDR.noPL.peaks.pvalue.200merge.200bp.table 0 WT-MS1-SCE-rep2_S4.2x36mers.unique.nochrM.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/sacCer3/sacCer3.chrom.sizes post-IDR.noPL.peaks.pvalue.200merge.200bp.table.WT-MS1-SCE-rep2_S4.RPM -singleFieldRegion -uniqueBAM