python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py 1d030858.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes 1d030858.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BHLH164.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BHLH164.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BZIP10.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BZIP10.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BZIP102.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BZIP102.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BZIP125.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BZIP125.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BZIP14.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BZIP14.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BZIP3.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BZIP3.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BZIP48.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BZIP48.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BZIP49.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BZIP49.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BZIP58.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BZIP58.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BZIP71.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BZIP71.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py BZIP92.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes BZIP92.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py DOF47.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes DOF47.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py EREB109.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes EREB109.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py EREB148.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes EREB148.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py EREB19.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes EREB19.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py EREB190.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes EREB190.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py EREB195.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes EREB195.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py EREB72.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes EREB72.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py EREB83.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes EREB83.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py EREB84.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes EREB84.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py HB45.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes HB45.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py HB49.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes HB49.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py HB98.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes HB98.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py HSFTF20.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes HSFTF20.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py HSFTF5.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes HSFTF5.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py MYB127.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes MYB127.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py MYB32.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes MYB32.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py MYB35.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes MYB35.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py MYBR21.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes MYBR21.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py MYBR26.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes MYBR26.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py MYBR32.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes MYBR32.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py MYBR43.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes MYBR43.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py MYBR77.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes MYBR77.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py MYC7.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes MYC7.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py NACTF110.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes NACTF110.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py NACTF23.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes NACTF23.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py NACTF32.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes NACTF32.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py NACTF4.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes NACTF4.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py O2.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes O2.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py OHP1.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes OHP1.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py THX35.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes THX35.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py TU1.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes TU1.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py WOX13A.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes WOX13A.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py WRKY53.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes WRKY53.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py YY1.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes YY1.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py pUC57-Halo_repeat_1.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes pUC57-Halo_repeat_1.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py pUC57-Halo_repeat_2.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes pUC57-Halo_repeat_2.2x36mers.InsertLength -uniqueBAM -normalize
python /oak/stanford/groups/akundaje/marinovg/code/PEInsertDistFromBAM.py pUC57-Halo_repeat_3.PE.a.bam /oak/stanford/groups/akundaje/marinovg/genomes/Land_plants/Zea_mays-B73_RefGen_v4/GCA_000005005.6_B73_RefGen_v4_genomic.chrom.sizes pUC57-Halo_repeat_3.2x36mers.InsertLength -uniqueBAM -normalize