python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L01_exp260204_MS8_SCD_no-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L02_exp260204_MS8_SCD_05min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L03_exp260204_MS8_SCD_10min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L04_exp260204_MS8_SCD_20min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L05_exp260204_MS8_SCGE_no-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L06_exp260204_MS8_SCGE_05min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L07_exp260204_MS8_SCGE_10min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/C_glabrata_CBS138_current_chromosomes.nochrM.chrom.sizes 2026-02-25-LHG260210L08_exp260204_MS8_SCGE_20min-EU.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25