python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HTA1-HTB1.bed 0 1 2 3 tabix HTA1-HTB1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HTA1-HTB1.bed 0 1 2 3 tabix HTA1-HTB1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HTA1-HTB1.bed 0 1 2 3 tabix HTA1-HTB1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HTA1-HTB1.bed 0 1 2 3 tabix HTA1-HTB1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HTA1-HTB1.bed 0 1 2 3 tabix HTA1-HTB1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HTA1-HTB1.bed 0 1 2 3 tabix HTA1-HTB1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HHF1-HHT1.bed 0 1 2 3 tabix HHF1-HHT1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HHF1-HHT1.bed 0 1 2 3 tabix HHF1-HHT1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HHF1-HHT1.bed 0 1 2 3 tabix HHF1-HHT1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HHF1-HHT1.bed 0 1 2 3 tabix HHF1-HHT1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HHF1-HHT1.bed 0 1 2 3 tabix HHF1-HHT1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HHF1-HHT1.bed 0 1 2 3 tabix HHF1-HHT1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HHF2-HHT2.bed 0 1 2 3 tabix HHF2-HHT2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HHF2-HHT2.bed 0 1 2 3 tabix HHF2-HHT2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HHF2-HHT2.bed 0 1 2 3 tabix HHF2-HHT2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HHF2-HHT2.bed 0 1 2 3 tabix HHF2-HHT2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HHF2-HHT2.bed 0 1 2 3 tabix HHF2-HHT2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HHF2-HHT2.bed 0 1 2 3 tabix HHF2-HHT2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HHO1.bed 0 1 2 3 tabix HHO1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HHO1.bed 0 1 2 3 tabix HHO1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HHO1.bed 0 1 2 3 tabix HHO1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HHO1.bed 0 1 2 3 tabix HHO1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HHO1.bed 0 1 2 3 tabix HHO1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HHO1.bed 0 1 2 3 tabix HHO1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HTA2-HTB2.bed 0 1 2 3 tabix HTA2-HTB2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HTA2-HTB2.bed 0 1 2 3 tabix HTA2-HTB2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HTA2-HTB2.bed 0 1 2 3 tabix HTA2-HTB2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HTA2-HTB2.bed 0 1 2 3 tabix HTA2-HTB2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HTA2-HTB2.bed 0 1 2 3 tabix HTA2-HTB2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HTA2-HTB2.bed 0 1 2 3 tabix HTA2-HTB2.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HTZ1.bed 0 1 2 3 tabix HTZ1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HTZ1.bed 0 1 2 3 tabix HTZ1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HTZ1.bed 0 1 2 3 tabix HTZ1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.10bp.resize1 -window 10 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 1 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_0min/2018_07_05_Diamide_0min.all.BI_w10_a10_b10.reads.tsv.bgz HTZ1.bed 0 1 2 3 tabix HTZ1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_0min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_30min/2018_07_05_Diamide_30min.all.BI_w10_a10_b10.reads.tsv.bgz HTZ1.bed 0 1 2 3 tabix HTZ1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_30min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
python ~/code/bisulfite/SMAC-footprints-from-methylation-reads-tsv-tabix-kmeans.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-07-05_Diamide_60min/2018_07_05_Diamide_60min.all.BI_w10_a10_b10.reads.tsv.bgz HTZ1.bed 0 1 2 3 tabix HTZ1.kmeans.binary-0.5-gist_heat.2018-07-05_Diamide_60min.all.BI_w10_a10_b10.1bp.resize10 -window 1 -minCov 1 -deleteMatrix -binarize 0.5 -scatterPlot gist_heat 0 1.1 w -resize 10 -unstranded &
