python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d00.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d00.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d00.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d00.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d05.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d05.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d05.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d05.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d10.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d10.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d10.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d10.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d15.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d15.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d15.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d15.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d20.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d20.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d20.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d20.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d25.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d25.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d25.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d25.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d30.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d30.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d30.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d30.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d35.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d35.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d35.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d35.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d40.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d40.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d40.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d40.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d45.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d45.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d45.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d45.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d50.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d50.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d50.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d50.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d55.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d55.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d55.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d55.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d60.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d60.PAS-seq.b1 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d60.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.unique.wig.gz 1000 coverage-primary_keratinocyte-d60.PAS-seq.b2 -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d00.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d00.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d00.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d00.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d05.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d05.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d05.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d05.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d10.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d10.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d10.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d10.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d15.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d15.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d15.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d15.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d20.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d20.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d20.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d20.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d25.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d25.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d25.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d25.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d30.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d30.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d30.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d30.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d35.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d35.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d35.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d35.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d40.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d40.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d40.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d40.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d45.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d45.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d45.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d45.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d50.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d50.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d50.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d50.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d55.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d55.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d55.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d55.PAS-seq.b2.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d60.PAS-seq.b1/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d60.PAS-seq.b1.dedup -normalize -singlemodelgenes
python /oak/stanford/groups/akundaje/marinovg/code/transcriptome/gene_coverage_wig_gtf.py /oak/stanford/groups/akundaje/marinovg/genomes/hg19/hg19.refFlat-2012-10-22.gtf primary_keratinocyte-d60.PAS-seq.b2/STAR-2.5.3aAligned.sortedByCoord.out.dedup.unique.wig.gz 1000 coverage-primary_keratinocyte-d60.PAS-seq.b2.dedup -normalize -singlemodelgenes