python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks0 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks10 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks100 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1000 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1001 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1002 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1003 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1004 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1005 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1006 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1007 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1008 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1009 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks101 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1010 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1011 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1012 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1013 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1014 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1015 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1016 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1017 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1018 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1019 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks102 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1020 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1021 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1022 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1023 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1024 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1025 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1026 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1027 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1028 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1029 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks103 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1030 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1031 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1032 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1033 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1034 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1035 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1036 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1037 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1038 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1039 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks104 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1040 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1041 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1042 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1043 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1044 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1045 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1046 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1047 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1048 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1049 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks105 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1050 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1051 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1052 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1053 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1054 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1055 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1056 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1057 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1058 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1059 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks106 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1060 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1061 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1062 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1063 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1064 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1065 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1066 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1067 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1068 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1069 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks107 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1070 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1071 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1072 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1073 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1074 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1075 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1076 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1077 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1078 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1079 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks108 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1080 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1081 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1082 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1083 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1084 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1085 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1086 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1087 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1088 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1089 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks109 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1090 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1091 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1092 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1093 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1094 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1095 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1096 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1097 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1098 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1099 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks11 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks110 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1100 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1101 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1102 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1103 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1104 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1105 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1106 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1107 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1108 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1109 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks111 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1110 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1111 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1112 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1113 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1114 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1115 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1116 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1117 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1118 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1119 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks112 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1120 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1121 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1122 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1123 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1124 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1125 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1126 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1127 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1128 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1129 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks113 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1130 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1131 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1132 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1133 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1134 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1135 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1136 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1137 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1138 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1139 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks114 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1140 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1141 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1142 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1143 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1144 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1145 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1146 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1147 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1148 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1149 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks115 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1150 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1151 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1152 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1153 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1154 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1155 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1156 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1157 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1158 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1159 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks116 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1160 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1161 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1162 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1163 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1164 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1165 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1166 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1167 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1168 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1169 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks117 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1170 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1171 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1172 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1173 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1174 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1175 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1176 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1177 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1178 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1179 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks118 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1180 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1181 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1182 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1183 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1184 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1185 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1186 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1187 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1188 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1189 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks119 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1190 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1191 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1192 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1193 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1194 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1195 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1196 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1197 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1198 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1199 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks12 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks120 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1200 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1201 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1202 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1203 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1204 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1205 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1206 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1207 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1208 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1209 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks121 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1210 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1211 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1212 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1213 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1214 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1215 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1216 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1217 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1218 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1219 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks122 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1220 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1221 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1222 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1223 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1224 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1225 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1226 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1227 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1228 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1229 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks123 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1230 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1231 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1232 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1233 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1234 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1235 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1236 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1237 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1238 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1239 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks124 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1240 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1241 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1242 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1243 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1244 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1245 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1246 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1247 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1248 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1249 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks125 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1250 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1251 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1252 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1253 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1254 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1255 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1256 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1257 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1258 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1259 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks126 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1260 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1261 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1262 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1263 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1264 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1265 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1266 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1267 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1268 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1269 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks127 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1270 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1271 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1272 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1273 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1274 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1275 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1276 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1277 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1278 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1279 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks128 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1280 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1281 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1282 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1283 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1284 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1285 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1286 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1287 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1288 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1289 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks129 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1290 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1291 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1292 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1293 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1294 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1295 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1296 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1297 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1298 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1299 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks13 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks130 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1300 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1301 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1302 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1303 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1304 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1305 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1306 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1307 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1308 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1309 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks131 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1310 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1311 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1312 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1313 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1314 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1315 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1316 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1317 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1318 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1319 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks132 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1320 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1321 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1322 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1323 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1324 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1325 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1326 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1327 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1328 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1329 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks133 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1330 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1331 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1332 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1333 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1334 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1335 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1336 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1337 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1338 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1339 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks134 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1340 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1341 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1342 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1343 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1344 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1345 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1346 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1347 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1348 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1349 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks135 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1350 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1351 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1352 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1353 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1354 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1355 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1356 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1357 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1358 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1359 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks136 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1360 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1361 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1362 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1363 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1364 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1365 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1366 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1367 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1368 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1369 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks137 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1370 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1371 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1372 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1373 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1374 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1375 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1376 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1377 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1378 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1379 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks138 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1380 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1381 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1382 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1383 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1384 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1385 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1386 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1387 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1388 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1389 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks139 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1390 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1391 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1392 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1393 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1394 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1395 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1396 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1397 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1398 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1399 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks14 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks140 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1400 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1401 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1402 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1403 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1404 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1405 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1406 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1407 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1408 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1409 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks141 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1410 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1411 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1412 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1413 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1414 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1415 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1416 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1417 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1418 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1419 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks142 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1420 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1421 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1422 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1423 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1424 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1425 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1426 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1427 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1428 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1429 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks143 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1430 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1431 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1432 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1433 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1434 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1435 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1436 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1437 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1438 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1439 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks144 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1440 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1441 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1442 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1443 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1444 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1445 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1446 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1447 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1448 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1449 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks145 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1450 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1451 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1452 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1453 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1454 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1455 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1456 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1457 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1458 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1459 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks146 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1460 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1461 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1462 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1463 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1464 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1465 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1466 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1467 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1468 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1469 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks147 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1470 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1471 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1472 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1473 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1474 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1475 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1476 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1477 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1478 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1479 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks148 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1480 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1481 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1482 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1483 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1484 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1485 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1486 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1487 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1488 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1489 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks149 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1490 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1491 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1492 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1493 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1494 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1495 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1496 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1497 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1498 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1499 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks15 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks150 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1500 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1501 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1502 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1503 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1504 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1505 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1506 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1507 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1508 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1509 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks151 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1510 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1511 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1512 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1513 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1514 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1515 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1516 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1517 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1518 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1519 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks152 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1520 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1521 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1522 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1523 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1524 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1525 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1526 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1527 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1528 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1529 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks153 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1530 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1531 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1532 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1533 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1534 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1535 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1536 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1537 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1538 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1539 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks154 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1540 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1541 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1542 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1543 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1544 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1545 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1546 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1547 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1548 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1549 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks155 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1550 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1551 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1552 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1553 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1554 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1555 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1556 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1557 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1558 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1559 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks156 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1560 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1561 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1562 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1563 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1564 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1565 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1566 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1567 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1568 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1569 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks157 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1570 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1571 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1572 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1573 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1574 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1575 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1576 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1577 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1578 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1579 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks158 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1580 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1581 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1582 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1583 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1584 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1585 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1586 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1587 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1588 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1589 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks159 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1590 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1591 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1592 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1593 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1594 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1595 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1596 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1597 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1598 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1599 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks16 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks160 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1600 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1601 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1602 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1603 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1604 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1605 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1606 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1607 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1608 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1609 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks161 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1610 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1611 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1612 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1613 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1614 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1615 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1616 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1617 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1618 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1619 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks162 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1620 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1621 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1622 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1623 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1624 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1625 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1626 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1627 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1628 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1629 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks163 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1630 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1631 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1632 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1633 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1634 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1635 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1636 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1637 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1638 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1639 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks164 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1640 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1641 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1642 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1643 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1644 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1645 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1646 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1647 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1648 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1649 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks165 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1650 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1651 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1652 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1653 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1654 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1655 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1656 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1657 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1658 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1659 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks166 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1660 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1661 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1662 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1663 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1664 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1665 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1666 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1667 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1668 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1669 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks167 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1670 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1671 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1672 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1673 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1674 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1675 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1676 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1677 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1678 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1679 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks168 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1680 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1681 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1682 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1683 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1684 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1685 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1686 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1687 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1688 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1689 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks169 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1690 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1691 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1692 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1693 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1694 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1695 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1696 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1697 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1698 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1699 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks17 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks170 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1700 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1701 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1702 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1703 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1704 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1705 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1706 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1707 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1708 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1709 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks171 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1710 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1711 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1712 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1713 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1714 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1715 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1716 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1717 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1718 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1719 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks172 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1720 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1721 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1722 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1723 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1724 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1725 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1726 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1727 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1728 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1729 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks173 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1730 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1731 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1732 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1733 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1734 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1735 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1736 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1737 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1738 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1739 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks174 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1740 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1741 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1742 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1743 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1744 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1745 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1746 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1747 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1748 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1749 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks175 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1750 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1751 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1752 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1753 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1754 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1755 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1756 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1757 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1758 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1759 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks176 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1760 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1761 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1762 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1763 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1764 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1765 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1766 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1767 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1768 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1769 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks177 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1770 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1771 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1772 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1773 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1774 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1775 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1776 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1777 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1778 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1779 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks178 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1780 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1781 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1782 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1783 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1784 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1785 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1786 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1787 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1788 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1789 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks179 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1790 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1791 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1792 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1793 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1794 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1795 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1796 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1797 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1798 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1799 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks18 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks180 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1800 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1801 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1802 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1803 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1804 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1805 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1806 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1807 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1808 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1809 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks181 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1810 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1811 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1812 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1813 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1814 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1815 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1816 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1817 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1818 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1819 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks182 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1820 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1821 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1822 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1823 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1824 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1825 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1826 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1827 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1828 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1829 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks183 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1830 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1831 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1832 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1833 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1834 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1835 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1836 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1837 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1838 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1839 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks184 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1840 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1841 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1842 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1843 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1844 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1845 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1846 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1847 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1848 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1849 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks185 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1850 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1851 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1852 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1853 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1854 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1855 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1856 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1857 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1858 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1859 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks186 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1860 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1861 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1862 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1863 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1864 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1865 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1866 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1867 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1868 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1869 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks187 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1870 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1871 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1872 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1873 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1874 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1875 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1876 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1877 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1878 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1879 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks188 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1880 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1881 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1882 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1883 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1884 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1885 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1886 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1887 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1888 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1889 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks189 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1890 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1891 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1892 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1893 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1894 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1895 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1896 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1897 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1898 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1899 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks19 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks190 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1900 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1901 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1902 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1903 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1904 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1905 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1906 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1907 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1908 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1909 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks191 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1910 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1911 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1912 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1913 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1914 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1915 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1916 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1917 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1918 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1919 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks192 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1920 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1921 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1922 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1923 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1924 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1925 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1926 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1927 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1928 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1929 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks193 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1930 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1931 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1932 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1933 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1934 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1935 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1936 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1937 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1938 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1939 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks194 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1940 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1941 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1942 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1943 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1944 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1945 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1946 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1947 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1948 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1949 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks195 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1950 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1951 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1952 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1953 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1954 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1955 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1956 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1957 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1958 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1959 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks196 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1960 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1961 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1962 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1963 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1964 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1965 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1966 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1967 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1968 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1969 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks197 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1970 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1971 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1972 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1973 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1974 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1975 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1976 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1977 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1978 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1979 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks198 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1980 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1981 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1982 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1983 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1984 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1985 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1986 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1987 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1988 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1989 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks199 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1990 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1991 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1992 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1993 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1994 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1995 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1996 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1997 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1998 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks1999 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks20 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks200 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2000 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2001 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2002 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2003 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2004 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2005 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2006 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2007 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2008 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2009 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks201 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2010 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2011 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2012 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2013 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2014 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2015 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2016 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2017 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2018 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2019 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks202 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2020 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2021 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2022 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2023 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2024 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2025 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2026 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2027 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2028 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2029 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks203 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2030 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2031 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2032 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2033 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2034 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2035 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2036 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2037 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2038 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2039 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks204 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2040 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2041 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2042 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2043 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2044 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2045 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2046 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2047 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2048 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2049 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks205 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2050 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2051 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2052 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2053 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2054 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2055 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2056 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2057 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2058 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2059 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks206 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2060 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2061 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2062 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2063 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2064 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2065 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2066 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2067 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2068 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2069 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks207 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2070 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2071 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2072 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2073 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2074 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2075 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2076 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2077 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2078 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2079 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks208 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2080 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2081 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2082 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2083 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2084 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2085 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2086 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2087 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2088 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2089 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks209 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2090 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2091 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2092 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2093 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2094 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2095 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2096 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2097 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2098 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2099 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks21 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks210 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2100 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2101 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2102 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2103 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2104 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2105 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2106 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2107 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2108 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2109 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks211 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2110 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2111 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2112 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2113 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2114 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2115 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2116 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2117 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2118 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2119 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks212 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2120 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2121 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2122 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2123 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2124 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2125 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2126 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2127 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2128 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2129 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks213 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2130 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2131 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2132 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2133 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2134 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2135 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2136 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2137 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2138 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2139 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks214 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2140 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2141 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2142 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2143 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2144 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2145 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2146 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2147 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2148 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2149 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks215 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2150 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2151 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2152 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2153 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2154 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2155 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2156 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2157 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2158 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2159 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks216 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2160 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2161 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2162 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2163 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2164 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2165 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2166 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2167 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2168 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2169 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks217 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2170 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2171 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2172 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2173 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2174 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2175 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2176 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2177 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2178 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2179 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks218 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2180 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2181 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2182 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2183 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2184 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2185 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2186 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2187 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2188 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2189 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks219 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2190 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2191 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2192 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2193 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2194 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2195 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2196 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2197 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2198 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2199 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks22 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks220 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2200 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2201 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2202 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2203 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2204 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2205 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2206 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2207 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2208 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2209 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks221 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2210 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2211 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2212 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2213 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2214 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2215 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2216 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2217 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2218 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2219 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks222 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2220 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2221 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2222 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2223 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2224 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2225 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2226 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2227 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2228 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2229 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks223 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2230 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2231 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2232 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2233 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2234 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2235 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2236 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2237 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2238 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2239 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks224 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2240 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2241 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2242 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2243 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2244 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2245 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2246 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2247 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2248 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2249 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks225 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2250 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2251 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2252 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2253 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2254 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2255 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2256 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2257 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2258 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2259 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks226 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2260 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2261 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2262 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2263 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2264 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2265 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2266 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2267 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2268 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2269 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks227 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2270 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2271 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2272 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2273 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2274 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2275 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2276 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2277 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2278 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2279 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks228 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2280 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2281 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2282 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2283 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2284 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2285 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2286 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2287 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2288 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2289 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks229 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2290 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2291 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2292 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2293 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2294 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2295 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2296 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2297 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2298 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2299 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks23 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks230 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2300 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2301 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2302 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2303 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2304 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2305 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2306 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2307 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2308 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2309 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks231 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2310 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2311 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2312 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2313 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2314 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2315 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2316 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2317 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2318 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2319 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks232 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2320 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2321 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2322 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2323 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2324 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2325 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2326 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2327 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2328 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2329 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks233 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2330 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2331 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2332 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2333 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2334 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2335 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2336 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2337 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2338 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks2339 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks234 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks235 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks236 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks237 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks238 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks239 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks24 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks240 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks241 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks242 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks243 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks244 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks245 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks246 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks247 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks248 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks249 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks25 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks250 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks251 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks252 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks253 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks254 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks255 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks256 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks257 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks258 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks259 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks26 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks260 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks261 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks262 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks263 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks264 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks265 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks266 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks267 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks268 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks269 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks27 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks270 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks271 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks272 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks273 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks274 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks275 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks276 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks277 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks278 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks279 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks28 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks280 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks281 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks282 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks283 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks284 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks285 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks286 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks287 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks288 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks289 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks29 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks290 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks291 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks292 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks293 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks294 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks295 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks296 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks297 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks298 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks299 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks3 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks30 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks300 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks301 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks302 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks303 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks304 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks305 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks306 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks307 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks308 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks309 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks31 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks310 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks311 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks312 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks313 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks314 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks315 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks316 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks317 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks318 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks319 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks32 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks320 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks321 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks322 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks323 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks324 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks325 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks326 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks327 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks328 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks329 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks33 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks330 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks331 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks332 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks333 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks334 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks335 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks336 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks337 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks338 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks339 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks34 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks340 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks341 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks342 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks343 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks344 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks345 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks346 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks347 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks348 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks349 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks35 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks350 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks351 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks352 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks353 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks354 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks355 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks356 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks357 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks358 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks359 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks36 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks360 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks361 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks362 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks363 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks364 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks365 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks366 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks367 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks368 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks369 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks37 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks370 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks371 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks372 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks373 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks374 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks375 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks376 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks377 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks378 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks379 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks38 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks380 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks381 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks382 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks383 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks384 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks385 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks386 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks387 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks388 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks389 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks39 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks390 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks391 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks392 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks393 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks394 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks395 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks396 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks397 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks398 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks399 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks4 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks40 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks400 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks401 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks402 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks403 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks404 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks405 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks406 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks407 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks408 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks409 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks41 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks410 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks411 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks412 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks413 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks414 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks415 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks416 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks417 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks418 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks419 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks42 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks420 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks421 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks422 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks423 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks424 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks425 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks426 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks427 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks428 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks429 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks43 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks430 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks431 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks432 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks433 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks434 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks435 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks436 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks437 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks438 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks439 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks44 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks440 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks441 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks442 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks443 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks444 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks445 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks446 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks447 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks448 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks449 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks45 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks450 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks451 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks452 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks453 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks454 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks455 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks456 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks457 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks458 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks459 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks46 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks460 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks461 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks462 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks463 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks464 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks465 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks466 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks467 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks468 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks469 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks47 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks470 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks471 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks472 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks473 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks474 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks475 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks476 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks477 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks478 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks479 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks48 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks480 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks481 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks482 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks483 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks484 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks485 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks486 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks487 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks488 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks489 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks49 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks490 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks491 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks492 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks493 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks494 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks495 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks496 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks497 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks498 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks499 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks5 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks50 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks500 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks501 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks502 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks503 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks504 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks505 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks506 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks507 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks508 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks509 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks51 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks510 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks511 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks512 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks513 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks514 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks515 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks516 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks517 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks518 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks519 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks52 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks520 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks521 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks522 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks523 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks524 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks525 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks526 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks527 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks528 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks529 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks53 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks530 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks531 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks532 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks533 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks534 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks535 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks536 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks537 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks538 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks539 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks54 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks540 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks541 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks542 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks543 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks544 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks545 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks546 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks547 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks548 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks549 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks55 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks550 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks551 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks552 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks553 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks554 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks555 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks556 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks557 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks558 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks559 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks56 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks560 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks561 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks562 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks563 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks564 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks565 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks566 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks567 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks568 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks569 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks57 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks570 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks571 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks572 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks573 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks574 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks575 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks576 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks577 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks578 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks579 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks58 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks580 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks581 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks582 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks583 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks584 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks585 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks586 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks587 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks588 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks589 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks59 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks590 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks591 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks592 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks593 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks594 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks595 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks596 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks597 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks598 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks599 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks6 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks60 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks600 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks601 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks602 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks603 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks604 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks605 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks606 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks607 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks608 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks609 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks61 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks610 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks611 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks612 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks613 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks614 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks615 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks616 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks617 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks618 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks619 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks62 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks620 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks621 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks622 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks623 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks624 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks625 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks626 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks627 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks628 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks629 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks63 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks630 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks631 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks632 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks633 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks634 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks635 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks636 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks637 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks638 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks639 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks64 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks640 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks641 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks642 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks643 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks644 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks645 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks646 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks647 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks648 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks649 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks65 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks650 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks651 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks652 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks653 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks654 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks655 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks656 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks657 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks658 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks659 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks66 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks660 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks661 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks662 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks663 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks664 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks665 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks666 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks667 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks668 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks669 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks67 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks670 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks671 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks672 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks673 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks674 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks675 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks676 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks677 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks678 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks679 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks68 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks680 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks681 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks682 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks683 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks684 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks685 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks686 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks687 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks688 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks689 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks69 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks690 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks691 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks692 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks693 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks694 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks695 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks696 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks697 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks698 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks699 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks7 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks70 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks700 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks701 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks702 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks703 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks704 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks705 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks706 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks707 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks708 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks709 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks71 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks710 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks711 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks712 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks713 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks714 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks715 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks716 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks717 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks718 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks719 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks72 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks720 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks721 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks722 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks723 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks724 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks725 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks726 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks727 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks728 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks729 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks73 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks730 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks731 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks732 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks733 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks734 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks735 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks736 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks737 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks738 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks739 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks74 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks740 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks741 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks742 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks743 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks744 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks745 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks746 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks747 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks748 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks749 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks75 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks750 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks751 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks752 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks753 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks754 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks755 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks756 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks757 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks758 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks759 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks76 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks760 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks761 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks762 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks763 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks764 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks765 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks766 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks767 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks768 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks769 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks77 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks770 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks771 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks772 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks773 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks774 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks775 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks776 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks777 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks778 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks779 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks78 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks780 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks781 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks782 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks783 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks784 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks785 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks786 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks787 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks788 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks789 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks79 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks790 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks791 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks792 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks793 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks794 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks795 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks796 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks797 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks798 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks799 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks8 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks80 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks800 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks801 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks802 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks803 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks804 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks805 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks806 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks807 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks808 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks809 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks81 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks810 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks811 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks812 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks813 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks814 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks815 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks816 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks817 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks818 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks819 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks82 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks820 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks821 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks822 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks823 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks824 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks825 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks826 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks827 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks828 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks829 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks83 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks830 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks831 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks832 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks833 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks834 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks835 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks836 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks837 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks838 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks839 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks84 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks840 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks841 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks842 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks843 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks844 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks845 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks846 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks847 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks848 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks849 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks85 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks850 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks851 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks852 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks853 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks854 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks855 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks856 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks857 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks858 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks859 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks86 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks860 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks861 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks862 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks863 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks864 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks865 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks866 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks867 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks868 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks869 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks87 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks870 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks871 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks872 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks873 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks874 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks875 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks876 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks877 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks878 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks879 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks88 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks880 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks881 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks882 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks883 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks884 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks885 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks886 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks887 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks888 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks889 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks89 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks890 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks891 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks892 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks893 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks894 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks895 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks896 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks897 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks898 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks899 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks9 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks90 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks900 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks901 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks902 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks903 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks904 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks905 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks906 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks907 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks908 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks909 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks91 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks910 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks911 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks912 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks913 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks914 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks915 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks916 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks917 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks918 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks919 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks92 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks920 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks921 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks922 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks923 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks924 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks925 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks926 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks927 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks928 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks929 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks93 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks930 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks931 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks932 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks933 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks934 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks935 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks936 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks937 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks938 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks939 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks94 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks940 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks941 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks942 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks943 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks944 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks945 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks946 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks947 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks948 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks949 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks95 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks950 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks951 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks952 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks953 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks954 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks955 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks956 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks957 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks958 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks959 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks96 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks960 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks961 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks962 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks963 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks964 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks965 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks966 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks967 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks968 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks969 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks97 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks970 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks971 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks972 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks973 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks974 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks975 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks976 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks977 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks978 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks979 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks98 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks980 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks981 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks982 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks983 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks984 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks985 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks986 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks987 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks988 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks989 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks99 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks990 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks991 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks992 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks993 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks994 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks995 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks996 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks997 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks998 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/SingleMoleculeCorrelation-NMI-matrix.py /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-nanopore/2018-12-01-S2_Smac_Seq-withPromethION-dm3-Tombo-1.5/2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.reads.tsv.bgz dm3.50kb_10kb_step.bed.chr2L.chunks999 0 1 2 100 50 1000 tabix NMI.2019_03_12_First_Promethion.BI_w10_a40_b10+2019_03_15_Second_Promethion+2018_12_01_S2_Smac_Seq.BI_w10_a10_b10.100cov_50bp_1000bp -subsample 1 -expectedMaxDist 15000