## Beginning of track view
track             NS50093ArcherHoffman
compositeTrack    on
shortLabel        NS50093ArcherHoffman
longLabel         NS50093ArcherHoffman
priority          900
visibility        full
type              bed 3
configurable      on
subGroup1         view Views \
   COV=Coverage \
   PEAK=Peaks \
   JUNC=Junctions
subGroup2         Group1 Group1 \ 
    Brg1=Brg1 \
    Fip1=Fip1 \
    Input=Input
subGroup3         Group2 Group2 \ 
    mESC=mESC
dimensions        dimX=Group1 dimY=Group2
sortOrder         Group1=+ Group2=+  view=+
 
   ## Views track coverage data
   track             NS50093ArcherHoffmanView1
   parent            NS50093ArcherHoffman
   shortLabel        Coverage
   view              COV
   visibility        full
   type              bigWig
   allButtonPair     on
   centerLabelsDense on
   dragAndDrop       on
   alwaysZero        on
   graphTypeDefault  bar
   maxHeightPixels   100:40:8
   smoothingWindow   2
   transformFunc     NONE
   windowingFunction mean+whiskers
   gridDefault       on
   viewLimits        0:20
   viewUi            on
 
      ## Coverage track
      track             Brg1_coverage
      parent            NS50093ArcherHoffmanView1 on
      bigDataUrl        Brg1_1.sickle.merged.bowtie2Pe_mm10.sorted.bw
      shortLabel        Brg1_mESC coverage
      longLabel         Brg1_mESC coverage
      type              bigWig
      color             123,31,31
      priority          902
      alwaysZero        on
      graphTypeDefault  bar
      maxHeightPixels   100:40:8
      smoothingWindow   2
      transformFunc     NONE
      windowingFunction mean+whiskers
      gridDefault       on
      viewLimits        0:20
      visibility        hide
      subGroups         Group1=Brg1 Group2=mESC view=COV
 
      ## Coverage track
      track             Fip1_coverage
      parent            NS50093ArcherHoffmanView1 on
      bigDataUrl        Fip1_1.sickle.merged.bowtie2Pe_mm10.sorted.bw
      shortLabel        Fip1_mESC coverage
      longLabel         Fip1_mESC coverage
      type              bigWig
      color             163,92,4
      priority          904
      alwaysZero        on
      graphTypeDefault  bar
      maxHeightPixels   100:40:8
      smoothingWindow   2
      transformFunc     NONE
      windowingFunction mean+whiskers
      gridDefault       on
      viewLimits        0:20
      visibility        hide
      subGroups         Group1=Fip1 Group2=mESC view=COV
 
      ## Coverage track
      track             Input_coverage
      parent            NS50093ArcherHoffmanView1 on
      bigDataUrl        Input_1.sickle.merged.bowtie2Pe_mm10.sorted.bw
      shortLabel        Input_mESC coverage
      longLabel         Input_mESC coverage
      type              bigWig
      color             29,86,7
      priority          906
      alwaysZero        on
      graphTypeDefault  bar
      maxHeightPixels   100:40:8
      smoothingWindow   2
      transformFunc     NONE
      windowingFunction mean+whiskers
      gridDefault       on
      viewLimits        0:20
      visibility        hide
      subGroups         Group1=Input Group2=mESC view=COV
 
      ## Coverage track
      track             Brg1_Input_coverage
      parent            NS50093ArcherHoffmanView1 on
      bigDataUrl        Brg1_Input.scale_SES.ratio_log2.mm10_bamCompare.bw
      shortLabel        Brg1-Input coverage
      longLabel         Brg1-Input coverage
      type              bigWig
      color             123,11,11
      priority          907
      alwaysZero        on
      graphTypeDefault  bar
      maxHeightPixels   100:40:8
      smoothingWindow   2
      transformFunc     NONE
      windowingFunction mean+whiskers
      gridDefault       on
      viewLimits        0:20
      visibility        hide
      subGroups         Group1=Brg1 Group2=mESC view=COV
 
      ## Coverage track
      track             Fip1_Input_coverage
      parent            NS50093ArcherHoffmanView1 on
      bigDataUrl        Fip1_Input.scale_SES.ratio_log2.mm10_bamCompare.bw
      shortLabel        Fip1-Input coverage
      longLabel         Fip1-Input coverage
      type              bigWig
      color             163,52,3
      priority          908
      alwaysZero        on
      graphTypeDefault  bar
      maxHeightPixels   100:40:8
      smoothingWindow   2
      transformFunc     NONE
      windowingFunction mean+whiskers
      gridDefault       on
      viewLimits        0:20
      visibility        hide
      subGroups         Group1=Fip1 Group2=mESC view=COV

# Brg1_Input.scale_SES.ratio_log2.mm10_bamCompare.bw
# Fip1_Input.scale_SES.ratio_log2.mm10_bamCompare.bw 
   ## Views track for ChIPseq peaks
   track             NS50093ArcherHoffmanView3
   parent            NS50093ArcherHoffman
   shortLabel        Peaks
   view              PEAK
   visibility        pack
   type              bigBed
   allButtonPair     on
   centerLabelsDense on
   dragAndDrop       on
   viewUi            on
 
      # Peak track
      track             brg1vsInput
      parent            NS50093ArcherHoffmanView3 on
      bigDataUrl        homerComparison_Brg1-Vs-Input.findPeaks_none-region.200.250_fdr0.001_p0.0001_foc0.1_loc2000_fc4_min0.sorted.bb
      shortLabel        Brg1_mESC peaks (peak200,region250)
      longLabel         Brg1_mESC peaks (peak200,region250)
      type              bigBed
      visibility        pack
      priority          909
      color             123,31,31
      subGroups         Group1=Brg1 Group2=mESC view=PEAK
 
      # Peak track
      track             fip1vsInput
      parent            NS50093ArcherHoffmanView3 on
      bigDataUrl        homerComparison_Fip1-Vs-Input.findPeaks_none-region.200.250_fdr0.001_p0.0001_foc0.1_loc2000_fc4_min0.sorted.bb
      shortLabel        Fip1_mESC peaks (peak200,region250)
      longLabel         Fip1_mESC peaks (peak200,region250)
      type              bigBed
      visibility        pack
      priority          910
      color             163,92,4
      subGroups         Group1=Fip1 Group2=mESC view=PEAK
 
#      bigDataUrl        homerComparison_Brg1-Vs-Input.findPeaks_none-region.200.50_fdr0.001_p0.0001_foc0_loc2000_fc4_min0.sorted.bb
#      bigDataUrl        homerComparison_Fip1-Vs-Input.findPeaks_none-region.200.50_fdr0.001_p0.0001_foc0_loc2000_fc4_min0.sorted.bb