## Beginning of track view track ATACseq_eval compositeTrack on shortLabel ATACseq evaluation longLabel ATACseq evaluation priority 1400 visibility full type bed 3 configurable on subGroup1 view Views \ COV=Coverage \ REGIONS=Regions subGroup2 Group1 Group1 \ CSK=CSK subGroup3 Group2 Group2 \ Greenleaf=Greenleaf \ subGroup4 Group3 Group3 \ SingleCell_ATAC=SingleCell_ATAC \ subGroup5 Group4 Group4 \ Combined_CSK_Green_NFR=Combined_CSK_Green_NFR \ subGroup6 Group5 Group5 \ Combined_CSK_Green_NUC=Combined_CSK_Green_NUC \ subGroup7 Group6 Group6 \ Combined_CSK_Green_peaks=Combined_CSK_Green_peaks \ subGroup8 Group7 Group7 \ Class_I_nucATAC_signal_smooth=Class_I_nucATAC_signal_smooth \ subGroup9 Group8 Group8 \ Class_I_Occ=Class_I_Occ \ subGroup10 Group9 Group9 \ Class_I_nucATAC_signal=Class_I_nucATAC_signal \ subGroup11 Group10 Group10 \ Class_I_II_Occ=Class_I_II_Occ \ subGroup12 Group11 Group11 \ Class_I_II_sig=Class_I_II_sig \ subGroup13 Group12 Group12 \ TSS_occupancy=TSS_occupancy \ subGroup14 Group13 Group13 \ TSS_signal=TSS_signal \ subGroup15 Group14 Group14 \ H1_super_enh=H1_super_enh \ subGroup16 Group15 Group15 \ Improved_peaks=Improved_peaks \ dimensions dimX=Group1 #dimY=Group2 sortOrder Group1=+ view=+ sortOrder Group2=+ view=+ sortOrder Group3=+ view=+ sortOrder Group4=+ view=+ sortOrder Group5=+ view=+ sortOrder Group6=+ view=+ sortOrder Group7=+ view=+ sortOrder Group8=+ view=+ sortOrder Group9=+ view=+ sortOrder Group10=+ view=+ sortOrder Group11=+ view=+ sortOrder Group12=+ view=+ sortOrder Group13=+ view=+ sortOrder Group14=+ view=+ sortOrder Group15=+ view=+ ## Views track coverage data track ATACseq_coverage parent ATACseq_eval shortLabel Coverage view COV visibility full type bigWig allButtonPair on centerLabelsDense on dragAndDrop on alwaysZero on graphTypeDefault bar maxHeightPixels 100:60:8 smoothingWindow 2 transformFunc NONE windowingFunction mean+whiskers gridDefault on viewLimits 0:100 viewUi on ## Coverage track # track CSK_5ul_coverage_11aug2016 # parent ATACseq_coverage on # bigDataUrl CSK_5ul.sanger.trimmed.sickle.adapt.fastq.hg19_aligned_uniq_NFR_possort_dedup_resort.bw # shortLabel ATACseq CSK 5ul # longLabel ATACseq CSK 5ul # type bigWig # color 123,31,31 # priority 1405 # alwaysZero on # graphTypeDefault bar # maxHeightPixels 100:60:8 # smoothingWindow 2 # transformFunc NONE # windowingFunction mean+whiskers # gridDefault on # viewLimits 0:200 # visibility full # subGroups Group1=CSK view=COV ## Coverage track # track Greenleaf_5ul_coverage_11aug2016 # parent ATACseq_coverage on # bigDataUrl Greenleaf_5ul.sanger.trimmed.sickle.adapt.fastq.hg19_aligned_uniq_NFR_possort_dedup_resort.bw # shortLabel ATACseq Greenleaf 5ul # longLabel ATACseq Greenleaf 5ul # type bigWig # color 123,31,31 # priority 1408 # alwaysZero on # graphTypeDefault bar # maxHeightPixels 100:60:8 # smoothingWindow 2 # transformFunc NONE # windowingFunction mean+whiskers # gridDefault on # viewLimits 0:200 # visibility full # subGroups Group2=Greenleaf view=COV ## Coverage track track Greenleaf_Lab_NFR parent ATACseq_coverage on bigDataUrl GSE65360_single-H1ESC.peaks.bb shortLabel Greenleaf_Lab_NFR longLabel Greenleaf_Lab_NFR type bigBed color 123,31,31 priority 1413 alwaysZero on graphTypeDefault bar maxHeightPixels 100:60:8 smoothingWindow 2 transformFunc NONE windowingFunction mean+whiskers gridDefault on viewLimits 0:10 visibility full subGroups Group3=SingleCell_ATAC view=COV ## Coverage track # track My_H1_NFR_peaks_old # parent ATACseq_coverage on # bigDataUrl CSK_Green_comb_NFR_dedup_resort.bw # shortLabel My_H1_NFR_peaks # longLabel My_H1_NFR_peaks # type bigWig # color 123,31,31 # priority 1418 # alwaysZero on # graphTypeDefault bar # maxHeightPixels 100:60:8 # smoothingWindow 2 # transformFunc NONE # windowingFunction mean+whiskers # gridDefault on # viewLimits 0:300 # visibility full # subGroups Group4=Combined_CSK_Green_NFR=COV ## Coverage track track Combined_CSK_Green_NUC parent ATACseq_coverage on bigDataUrl CSK_Green_comb_NUC_dedup_resort.bw shortLabel NUC_Combined conditions longLabel NUC_Combined conditions type bigWig color 123,31,31 priority 1423 alwaysZero on graphTypeDefault bar maxHeightPixels 300:60:8 smoothingWindow 2 transformFunc NONE windowingFunction mean+whiskers gridDefault on viewLimits 0:100 visibility full subGroups Group5=Combined_CSK_Green_NFR=COV ## Coverage track # track Combined_peaks_NFR # parent ATACseq_coverage on # bigDataUrl CSK_Green_comb_NFR_dedup_narrowpeaks_hiDepth_rm_3column.bb # shortLabel Combined_NFR_peaks # longLabel Combined_NFR_peaks # type bigBed # color 123,31,31 # priority 1428 # alwaysZero on # graphTypeDefault bar # maxHeightPixels 500:60:8 # smoothingWindow 2 # transformFunc NONE # windowingFunction mean+whiskers # gridDefault on # viewLimits 0:10 # visibility full # subGroups Group6=SingleCell_ATAC view=COV ## Coverage track # track Class_I_nucATAC_signal_smooth # parent ATACseq_coverage on # bigDataUrl Class_I_WYS.nucleoatac_signal.smooth.bw # shortLabel Class_I_nucATAC_smooth # longLabel Class_I_nucATAC_smooth # type bigWig # color 123,31,31 # priority 1433 # alwaysZero on # graphTypeDefault bar # maxHeightPixels 300:60:8 # smoothingWindow 2 # transformFunc NONE # windowingFunction mean+whiskers # gridDefault on # viewLimits 0:1.5 # visibility full # subGroups Group7=Class_I_nucATAC_signal_smooth view=COV ## Coverage track # track Class_I_Occ # parent ATACseq_coverage on # bigDataUrl Class_I_WYS.occ.bw # shortLabel Class_I_Occ # longLabel Class_I_Occ # type bigWig # color 123,31,31 # priority 1438 # alwaysZero on # graphTypeDefault bar # maxHeightPixels 300:60:8 # smoothingWindow 2 # transformFunc NONE # windowingFunction mean+whiskers # gridDefault on # viewLimits 0:2 # visibility full # subGroups Group8=Class_I_Occ view=COV ## Coverage track # track Class_I_nucATAC_signal # parent ATACseq_coverage on # bigDataUrl Class_I_WYS.nucleoatac_signal.bw # shortLabel Class_I_nucATAC # longLabel Class_I_nucATAC # type bigWig # color 123,31,31 # priority 1443 # alwaysZero on # graphTypeDefault bar # maxHeightPixels 300:60:8 # smoothingWindow 2 # transformFunc NONE # windowingFunction mean+whiskers # gridDefault on # viewLimits 0:2 # visibility full # subGroups Group9=Class_I_nucATAC_signal view=COV ## Coverage track # track Class_I_II_Occupancy # parent ATACseq_coverage on # bigDataUrl Class_I_II_WYS_5kb_cent.occ.bw # shortLabel Class_I_II_occ # longLabel Class_I_II_occ # type bigWig # color 123,31,31 # priority 1448 # alwaysZero on # graphTypeDefault bar # maxHeightPixels 300:60:8 # smoothingWindow 2 # transformFunc NONE # windowingFunction mean+whiskers # gridDefault on # viewLimits 0:2 # visibility full # subGroups Group10=Class_I_II_Occ view=COV ## Coverage track track Class_I_II_nucleosome_signal parent ATACseq_coverage on bigDataUrl Class_I_II_WYS_5kb_cent.nucleoatac_signal.smooth.bw shortLabel Class_I_II_nuc longLabel Class_I_II_nuc type bigWig color 123,31,31 priority 1453 alwaysZero on graphTypeDefault bar maxHeightPixels 300:60:8 smoothingWindow 2 transformFunc NONE windowingFunction mean+whiskers gridDefault on viewLimits 0:2 visibility full subGroups Group12=Class_I_II_sig view=COV ## Coverage track # track TSS_occupancy # parent ATACseq_coverage on # bigDataUrl CSK_Green_comb.occ.bw # shortLabel TSS_occ # longLabel TSS_occ # type bigWig # color 123,31,31 # priority 1458 # alwaysZero on # graphTypeDefault bar # maxHeightPixels 300:60:8 # smoothingWindow 2 # transformFunc NONE # windowingFunction mean+whiskers # gridDefault on # viewLimits 0:2 # visibility full # subGroups Group13=TSS_occupancy view=COV ## Coverage track track TSS_nucleosome_signal parent ATACseq_coverage on bigDataUrl CSK_Green_comb.nucleoatac_signal.smooth.bw shortLabel TSS_nuc longLabel TSS_nuc type bigWig color 123,31,31 priority 1463 alwaysZero on graphTypeDefault bar maxHeightPixels 300:60:8 smoothingWindow 2 transformFunc NONE windowingFunction mean+whiskers gridDefault on viewLimits 0:2 visibility full subGroups Group14=TSS_signal view=COV ## Coverage track track Super_enhancers parent ATACseq_coverage on bigDataUrl H1_super_enhancers.nucleoatac_signal.smooth.bw shortLabel Super_enh_nuc longLabel Super_enh_nuc type bigWig color 123,31,31 priority 1468 alwaysZero on graphTypeDefault bar maxHeightPixels 300:60:8 smoothingWindow 2 transformFunc NONE windowingFunction mean+whiskers gridDefault on viewLimits 0:2 visibility full subGroups Group15=H1_super_enh view=COV ## Coverage track track Combined_NFR_peaks_improved parent ATACseq_coverage on bigDataUrl CSK_Green_comb_NFR_dedup_slocal_1000_peaks.narrowPeak_hiDepth_rm.bb shortLabel My_NFR_peaks longLabel My_NFR_peaks type bigBed color 123,31,31 priority 1473 alwaysZero on graphTypeDefault bar maxHeightPixels 500:60:8 smoothingWindow 2 transformFunc NONE windowingFunction mean+whiskers gridDefault on viewLimits 0:10 visibility full subGroups Group16=Improved_peaks view=COV # Fip1.dedupe.cov1x.bw # Brg1.dedupe.cov1x.bw # Input.dedupe.cov1x.bw ## Views track for ATACseq regions # track ATACseq_regions # parent ATACseq_eval # shortLabel ATACseq regions # view REGIONS # visibility pack # type bigBed # allButtonPair on # centerLabelsDense on # dragAndDrop on # viewUi on # Peak track # track ATACseq_regions_v1 # parent ATACseq_regions on # bigDataUrl ATACseq_regions_file.bb # shortLabel ATACseq regions # longLabel ATACseq regions # type bigBed # visibility pack # priority 908 # color 123,31,31 # subGroups Group1=CSK view=PEAK