python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3468-lung_firboblasts_HCMV.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3468-lung_firboblasts_HCMV.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3468-lung_firboblasts_HCMV.merlin.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Viruses/HCMV/merlin.chrom.sizes L3468-lung_firboblasts_HCMV.merlin.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3470-hEC-2.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3470-hEC-2.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3471-hEC-3.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3471-hEC-3.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3472-hInv-1.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3472-hInv-1.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3474-hInv-1.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3474-hInv-1.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3476-hECPos-2.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3476-hECPos-2.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3477-hECPos-3.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3477-hECPos-3.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3479-hInvPos-2.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3479-hInvPos-2.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3480-hInvPos-3.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3480-hInvPos-3.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3481-CRE-rep1.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3481-CRE-rep1.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3482-CRE-rep2.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3482-CRE-rep2.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3483-noCRE-rep1.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3483-noCRE-rep1.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3484-noCRE-rep2.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3484-noCRE-rep2.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3485-EC-rep1.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3485-EC-rep1.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3486-EC-rep2.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3486-EC-rep2.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3489-hInv-rep1.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3489-hInv-rep1.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3493-Hanbang_WT_NRSF.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3493-Hanbang_WT_NRSF.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3494-Hanbang_HS_NRSF.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3494-Hanbang_HS_NRSF.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3495-Hanbang_AS_NRSF.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3495-Hanbang_AS_NRSF.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3496-lung_firboblasts_H3K27me3.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3496-lung_firboblasts_H3K27me3.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3496-lung_firboblasts_H3K27me3.merlin.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Viruses/HCMV/merlin.chrom.sizes L3496-lung_firboblasts_H3K27me3.merlin.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3497-lung_firboblasts_CTCF.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3497-lung_firboblasts_CTCF.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3497-lung_firboblasts_CTCF.merlin.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Viruses/HCMV/merlin.chrom.sizes L3497-lung_firboblasts_CTCF.merlin.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3498-lung_firboblasts_H3K4me3.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3498-lung_firboblasts_H3K4me3.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3498-lung_firboblasts_H3K4me3.merlin.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Viruses/HCMV/merlin.chrom.sizes L3498-lung_firboblasts_H3K4me3.merlin.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3499-lung_firboblasts_4H8.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3499-lung_firboblasts_4H8.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3499-lung_firboblasts_4H8.merlin.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Viruses/HCMV/merlin.chrom.sizes L3499-lung_firboblasts_4H8.merlin.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3500-lung_firboblasts_H3K27ac.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3500-lung_firboblasts_H3K27ac.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3500-lung_firboblasts_H3K27ac.merlin.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Viruses/HCMV/merlin.chrom.sizes L3500-lung_firboblasts_H3K27ac.merlin.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3501-lung_firboblasts_H3K9me3.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3501-lung_firboblasts_H3K9me3.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3501-lung_firboblasts_H3K9me3.merlin.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Viruses/HCMV/merlin.chrom.sizes L3501-lung_firboblasts_H3K9me3.merlin.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3502-lung_firboblasts_H3K4me1.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3502-lung_firboblasts_H3K4me1.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3502-lung_firboblasts_H3K4me1.merlin.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Viruses/HCMV/merlin.chrom.sizes L3502-lung_firboblasts_H3K4me1.merlin.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3503-Hanbang_WT_input.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3503-Hanbang_WT_input.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3504-Hanbang_HS_input.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3504-Hanbang_HS_input.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3505-Hanbang_AS_input.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3505-Hanbang_AS_input.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3506-lung_firboblasts_HCMV-Input.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3506-lung_firboblasts_HCMV-Input.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3506-lung_firboblasts_HCMV-Input.merlin.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/Viruses/HCMV/merlin.chrom.sizes L3506-lung_firboblasts_HCMV-Input.merlin.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3507-CRE-rep1.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3507-CRE-rep1.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3508-CRE-rep2.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3508-CRE-rep2.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3509-CRE-rep3.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3509-CRE-rep3.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3510-noCRE-rep1.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3510-noCRE-rep1.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3511-noCRE-rep2.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3511-noCRE-rep2.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3512-noCRE-rep3.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3512-noCRE-rep3.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3513-EC-rep1.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3513-EC-rep1.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3514-EC-rep2.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3514-EC-rep2.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py L3515-EC-rep3.hg38-male.2x36mers.unique.dedup.bam /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38.chrom.sizes L3515-EC-rep3.hg38-male.2x36mers.unique.dedup.InsertLength -uniqueBAM -normalize