include ideasJointMay2021.mm10.txt
include ideasJointMay2021Signals.mm10.txt
include ideasJointMay2021parents.mm10.txt
include ccreByCell.txt
include esRP.txt
include visionSupport.txt
#include visionRna.txt
include rnaTracks.txt
include meryDiffExpr.mm10.txt 
include gene-ccre.txt
include sonication.txt
include atac.txt

track visionTfchip
shortLabel TF ChIP-seq
longLabel TF ChIP-seq
superTrack on
type bed 3 .
group vision
psuTrack 1

#include subtracks in files
include codexParent.txt
include perkinsTf.txt
include tfchip.txt 

track meryBlackTest
shortLabel Blacklists
longLabel Blacklists of regions with excessive read mapping
type bigBed 3
group vision
compositeTrack on
subGroup1 view Type all=Composite_blacklist cell=Cell_specific_blacklist
psuTrack 1

  track meryBlackComp
  parent meryBlackTest
  shortLabel Composite Blacklists
  view all
  visibility pack

    track meryBlack3Test
    shortLabel Composite blacklist
    longLabel Blacklist with MACs peaks and high signal windows
    parent meryBlackComp
    type bigBed 3 .
    bigDataUrl black/meryBlack3Test.bb
    subGroups view=all

    track meryBlackTestMacs3
    shortLabel MACs peaks
    longLabel Merged peaks from MACs runs on inputs of each cell type
    parent meryBlackComp
    subGroups view=all

    track meryBlackENCFF547MET
    shortLabel ENCODE
    longLabel ENCODE blacklist for mm10
    parent meryBlackComp
    type bigBed 3 .
    bigDataUrl black/meryBlackENCFF547MET.bb
    subGroups view=all

  track meryBlackCell
  shortLabel Cell specific blacklist
  parent meryBlackTest
  view cell
  visibility hide

    track meryBlackTest4
    shortLabel ER4
    longLabel Blacklist from ER4 input
    parent meryBlackCell
    subGroups view=cell

    track meryBlackTest4ch12
    shortLabel CH12
    longLabel Blacklist from CH12 input
    parent meryBlackCell
    subGroups view=cell

    track meryBlackTest4g1e
    shortLabel G1E
    longLabel Blacklist from G1E input
    parent meryBlackCell
    subGroups view=cell

    track meryBlackTest4ery
    shortLabel Ery
    longLabel Blacklist from Erythroid input
    parent meryBlackCell
    subGroups view=cell

    track meryBlackTest4cfue
    shortLabel CFU-E
    longLabel Blacklist from CFU-E input
    parent meryBlackCell
    subGroups view=cell

    track meryBlackTest4megs
    shortLabel Megs
    longLabel Blacklist from Megakaryocyte input
    parent meryBlackCell
    subGroups view=cell

    track meryBlackTest4mel
    shortLabel Mel
    longLabel Blacklist from Mel input
    parent meryBlackCell
    subGroups view=cell

    track meryBlackTest4mep
    shortLabel Mep
    longLabel Blacklist from Mep input
    parent meryBlackCell
    subGroups view=cell