python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1910-GM16_Haematodinium_DVNP_rep1.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1910-GM16_Haematodinium_DVNP_rep1.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1910-GM16_Haematodinium_DVNP_rep1.1x36mers.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 L1910-GM16_Haematodinium_DVNP_rep1.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.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 L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.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 L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.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 L1910-GM16_Haematodinium_DVNP_rep1.2x36mers.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 --- L1911-GM16_Haematodinium_DVNP_rep2.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1911-GM16_Haematodinium_DVNP_rep2.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1911-GM16_Haematodinium_DVNP_rep2.1x36mers.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 L1911-GM16_Haematodinium_DVNP_rep2.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.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 L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.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 L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.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 L1911-GM16_Haematodinium_DVNP_rep2.2x36mers.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 --- L1912-GM16_Haematodinium_DVNP_ON_rep1.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1912-GM16_Haematodinium_DVNP_ON_rep1.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1912-GM16_Haematodinium_DVNP_ON_rep1.1x36mers.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 L1912-GM16_Haematodinium_DVNP_ON_rep1.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.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 L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.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 L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.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 L1912-GM16_Haematodinium_DVNP_ON_rep1.2x36mers.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 --- L1913-GM16_Haematodinium_DVNP_ON_rep2.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1913-GM16_Haematodinium_DVNP_ON_rep2.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1913-GM16_Haematodinium_DVNP_ON_rep2.1x36mers.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 L1913-GM16_Haematodinium_DVNP_ON_rep2.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.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 L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.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 L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.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 L1913-GM16_Haematodinium_DVNP_ON_rep2.2x36mers.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 --- L1914-GM17_vehcile_DVNP_rep1.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1914-GM17_vehcile_DVNP_rep1.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1914-GM17_vehcile_DVNP_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1914-GM17_vehcile_DVNP_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1914-GM17_vehcile_DVNP_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1914-GM17_vehcile_DVNP_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1914-GM17_vehcile_DVNP_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1914-GM17_vehcile_DVNP_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1914-GM17_vehcile_DVNP_rep1.1x36mers.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 L1914-GM17_vehcile_DVNP_rep1.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1914-GM17_vehcile_DVNP_rep1.2x36mers.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 L1914-GM17_vehcile_DVNP_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1914-GM17_vehcile_DVNP_rep1.2x36mers.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 L1914-GM17_vehcile_DVNP_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1914-GM17_vehcile_DVNP_rep1.2x36mers.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 L1914-GM17_vehcile_DVNP_rep1.2x36mers.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 --- L1915-GM17_vehcile_DVNP_rep2.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1915-GM17_vehcile_DVNP_rep2.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1915-GM17_vehcile_DVNP_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1915-GM17_vehcile_DVNP_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1915-GM17_vehcile_DVNP_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1915-GM17_vehcile_DVNP_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1915-GM17_vehcile_DVNP_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1915-GM17_vehcile_DVNP_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1915-GM17_vehcile_DVNP_rep2.1x36mers.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 L1915-GM17_vehcile_DVNP_rep2.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1915-GM17_vehcile_DVNP_rep2.2x36mers.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 L1915-GM17_vehcile_DVNP_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1915-GM17_vehcile_DVNP_rep2.2x36mers.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 L1915-GM17_vehcile_DVNP_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1915-GM17_vehcile_DVNP_rep2.2x36mers.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 L1915-GM17_vehcile_DVNP_rep2.2x36mers.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 --- L1916-GM17_vehcile_DVNP_ON_rep1.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1916-GM17_vehcile_DVNP_ON_rep1.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1916-GM17_vehcile_DVNP_ON_rep1.1x36mers.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 L1916-GM17_vehcile_DVNP_ON_rep1.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.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 L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.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 L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.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 L1916-GM17_vehcile_DVNP_ON_rep1.2x36mers.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 --- L1917-GM17_vehcile_DVNP_ON_rep2.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1917-GM17_vehcile_DVNP_ON_rep2.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1917-GM17_vehcile_DVNP_ON_rep2.1x36mers.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 L1917-GM17_vehcile_DVNP_ON_rep2.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.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 L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.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 L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.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 L1917-GM17_vehcile_DVNP_ON_rep2.2x36mers.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 --- L1918-GM18_rep1.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1918-GM18_rep1.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1918-GM18_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1918-GM18_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1918-GM18_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1918-GM18_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1918-GM18_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1918-GM18_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1918-GM18_rep1.1x36mers.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 L1918-GM18_rep1.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1918-GM18_rep1.2x36mers.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 L1918-GM18_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1918-GM18_rep1.2x36mers.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 L1918-GM18_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1918-GM18_rep1.2x36mers.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 L1918-GM18_rep1.2x36mers.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 --- L1919-GM18_rep2.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1919-GM18_rep2.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1919-GM18_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1919-GM18_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1919-GM18_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1919-GM18_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1919-GM18_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1919-GM18_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1919-GM18_rep2.1x36mers.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 L1919-GM18_rep2.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1919-GM18_rep2.2x36mers.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 L1919-GM18_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1919-GM18_rep2.2x36mers.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 L1919-GM18_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1919-GM18_rep2.2x36mers.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 L1919-GM18_rep2.2x36mers.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 --- L1920-GM19_rep1.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1920-GM19_rep1.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1920-GM19_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1920-GM19_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1920-GM19_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1920-GM19_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1920-GM19_rep1.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1920-GM19_rep1.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1920-GM19_rep1.1x36mers.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 L1920-GM19_rep1.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1920-GM19_rep1.2x36mers.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 L1920-GM19_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1920-GM19_rep1.2x36mers.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 L1920-GM19_rep1.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1920-GM19_rep1.2x36mers.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 L1920-GM19_rep1.2x36mers.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 --- L1921-GM19_rep2.1x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.unique.nochrM.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1921-GM19_rep2.1x36mers.sacCer3.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1921-GM19_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1921-GM19_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1921-GM19_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1921-GM19_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1921-GM19_rep2.2x36mers.sacCer3+C_glabrata_CBS138_current_chromosomes.a.bam /oak/stanford/groups/akundaje/marinovg/Stanford_bootcamp/combined_indexes/sacCer3.nochrM.chrom.sizes L1921-GM19_rep2.2x36mers.sacCer3.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1921-GM19_rep2.1x36mers.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 L1921-GM19_rep2.1x36mers.C_glabrata_CBS138_current_chromosomes.unique.nochrM.wig -notitle -RPM
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1921-GM19_rep2.2x36mers.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 L1921-GM19_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1921-GM19_rep2.2x36mers.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 L1921-GM19_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragment.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragment
python /oak/stanford/groups/akundaje/marinovg/code/makewigglefromBAM-NH.py --- L1921-GM19_rep2.2x36mers.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 L1921-GM19_rep2.2x36mers.C_glabrata_CBS138_current_chromosomes.a.nochrM.ERMTOC.fragmentMidPoint_50bp.wig -notitle -RPM -excludeReadsMappingToOtherChromosomes -fullFragmentMidPoint 25