track cpgIslandSuperTrack type bigBed shortLabel cpgIsland SuperTrack Container longLabel cpgIsland SuperTrack Container superTrack on track cpgIslandExt_ type bigBed 4 + parent cpgIslandSuperTrack longLabel CpG Islands (Islands < 300 Bases are Light Green) color 0,100,0 altColor 128,228,128 bigDataUrl http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.cpgIslandExt.bb priority 90 html http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/trackDescriptions/cpgIslandExt group regulation shortLabel CpG Islands visibility pack #track cpgIslandIncorrect #type bigBed #shortLabel trackWithNoParent #longLabel trackWithNoParent #bigDataUrl http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.cpgIslandExt.bb #parent missingParent track cpgIslandViewContainer compositeTrack on shortLabel trackWithViewContainer longLabel trackWithViewContainer subGroup1 view Views A=a type bed track viewStanza parent cpgIslandViewContainer shortLabel viewStanza longLabel viewStanza view a type bigBed track viewTrack shortLabel viewTrack longLabel viewTrack bigDataUrl http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.cpgIslandExt.bb subGroups A=a parent viewStanza type bigBed #track cpgIslandWrongParent #type bigBed #shortLabel trackWrongParent #longLabel trackWrongParent #bigDataUrl http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.cpgIslandExt.bb #track cpgIslandBadChild #type bigBed #shortLabel trackWithWrongParent #longLabel trackWithWrongParent #bigDataUrl http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.cpgIslandExt.bb #parent cpgIslandWrongParent track repeatMasker_ noInherit on type bed 6 . longLabel Repeating Elements by RepeatMasker priority 149.1 compositeTrack on html http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/trackDescriptions/repeatMasker group varRep shortLabel RepeatMasker #correct: #subGroup1 view Views SuperEnhancers=ROSE #dimensions dimX=view #sortOrder view=+ #incorrect: subGroup1 source Source EnsRegBuild=Regulatory_Build TFBS=Transcription_Factor_Binding_Site_Peaks_Summary subGroup2 blank Blank Tag1=Val1 #dimensions dimY=source sortOrder source=+ visibility dense track repeatMaskerSINE_ #correct: #subGroups view=SuperEnhancers #incorrect: subGroups source=EnsRegBuild noGroup=badGroup type bigBed 6 + longLabel SINE Repeating Elements by RepeatMasker parent repeatMasker_ bigDataUrl http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.rmsk.SINE.bb priority 1 maxWindowToDraw 10000000 spectrum on shortLabel SINE colorByStrand 50,50,150 150,50,50 track repeatMaskerSINE2 #correct: #subGroups view=SuperEnhancers #incorrect: subGroups source=TFBS type bigBed 6 + longLabel SINE2 Repeating Elements by RepeatMasker parent repeatMasker_ bigDataUrl http://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.rmsk.SINE.bb priority 1 maxWindowToDraw 10000000 spectrum on shortLabel SINE2 colorByStrand 50,50,150 150,50,50 #track emptyContainer #compositeTrack on #shortLabel missingChildren #longLabel missingChildren #type bigWig track SuperEnhancersBadSubgroups superTrack on shortLabel SuperenhancersBadSubgroups longLabel Superenhancers track SuperEnhancersBadSubgroupsComposite compositeTrack on #bigDataUrl http://should.not.have/one.bb parent SuperEnhancersBadSubgroups shortLabel SuperEnhancersBadSubgroupsComp longLabel SuperEnhancersBadSubgroupsComp subGroup1 view Views SuperEnhancers=ROSE dimensions dimensionX=view sortOrder view=+ dividers view dragAndDrop on visibility dense type bigBed 3 + track state1 shortLabel state1shortLabel longLabel state1LongLabel #subGroups view=SuperEnhancers view ROSE type bigBed 3 + visibility hide bigDataUrl http://genome-test.gi.ucsc.edu/~chmalee/hubValidate/plants/cshl2013/araTha1/CS13-12383_25state_dense_Gateway_SuperEnhancers.bigBed color 255,197,77 parent SuperEnhancersBadSubgroupsComposite on track state2 shortLabel state2shortLabel longLabel state2longLabel view ROSE #subGroups view=SuperEnhancers type bigBed 3 + visibility hide bigDataUrl http://genome-test.gi.ucsc.edu/~chmalee/hubValidate/plants/cshl2013/araTha1/CS13-12690_25state_dense_Gateway_SuperEnhancers.bigBed color 255,197,77 parent SuperEnhancersBadSubgroupsComposite on track SuperEnhancersComposite2 compositeTrack on #parent SuperEnhancersSuperTrackWithTwoSubgroups shortLabel SuperEnhancersTwoSubsComp longLabel SuperEnhancersTwoSubsComp subGroup1 view Views SuperEnhancers=ROSE subGroup2 tag Tags SuperEnhancers=ROSE dimensions dimensionX=view dimensionY=tag sortOrder view=+ tag=+ dividers view dragAndDrop on visibility dense type bigBed 4 . configurable on track state3 configurable on shortLabel state3NoSubgroups longLabel state3NoSubgroups #subGroups view=SuperEnhancers tag=SuperEnhancers subGroups badTag=wrongName view ROSE type bigBed 4 . visibility hide bigDataUrl http://genome-test.gi.ucsc.edu/~chmalee/hubValidate/plants/cshl2013/araTha1/CS13-12383_25state_dense_Gateway_SuperEnhancers.bigBed color 255,197,77 parent SuperEnhancersComposite2 on track state4 shortLabel state4OneSubgroupMembership longLabel state4OneSubgorupMembership view ROSE subGroups view=SuperEnhancers type bigBed 4 . visibility hide bigDataUrl http://genome-test.gi.ucsc.edu/~chmalee/hubValidate/plants/cshl2013/araTha1/CS13-12690_25state_dense_Gateway_SuperEnhancers.bigBed color 255,197,77 parent SuperEnhancersComposite2 on configurable on track H2A.Z_MultiWig_ImputedComp container multiWig shortLabel H2A.Z_Summary longLabel Summary Overlay for all Imputed H2A.Z Signal Tracks (21 Samples) type bigWig track macs2signal_impute_CS13-12383_H2A.Z_M type bigWig shortLabel impute_CS13-12383_H2A.Z_M longLabel impute_CS13-12383_H2A.Z_M bigDataUrl https://bad.url.txt/missing.bb #bigDataUrl http://cotneylab.cam.uchc.edu/~jcotney/CRANIOFACIAL_HUB/hg19/impute_CS13-12383_H2A.Z.pval.signal.bigWig parent H2A.Z_MultiWig_ImputedComp on track SuperTrackOfMultiWigsView superTrack on shortLabel supMultiWigView longLabel supMultiWigView #type bigBed track comp1 compositeTrack on parent SuperTrackOfMultiWigsView subGroup1 view Views A=a B=b type bigWig shortLabel comp1 longLabel comp1 track comp1View1 parent comp1 shortLabel comp1View1 longLabel comp1View1 type bigWig view a track comp1Wig1 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw type bigWig subGroups view=A parent comp1View1 track comp1Wig2 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw type bigWig subGroups view=A parent comp1View1 track comp1View2 parent comp1 shortLabel comp1View2 longLabel comp1View2 type bigWig view b track comp1Wig3 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw type bigWig subGroups view=B parent comp1View2 track comp1Wig4 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw type bigWig subGroups view=B parent comp1View2 track comp2 compositeTrack on shortLabel comp2 longLabel comp2 subGroup1 view Views A=a B=b type bigWig parent SuperTrackOfMultiWigsView track comp2View1 view a shortLabel comp2View1 longLabel comp2View1 parent comp2 type bigWig track comp2Wig1 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw type bigWig subGroups view=A parent comp2View1 track comp2Wig2 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw type bigWig subGroups view=A parent comp2View1 track comp2View2 view b shortLabel comp2View1 longLabel comp2View1 parent comp2 type bigWig track comp2Wig3 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw type bigWig subGroups view=B parent comp2View2 track comp2Wig4 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw type bigWig subGroups view=B parent comp2View2 track BuildOverview noInherit on type bigBed 9 longLabel Ensembl Regulatory Build overviews priority 1 dragAndDrop subTracks compositeTrack on html http://ftp.ensembl.org/pub/papers/regulation/mm10/overview/index visibility squish shortLabel Build Overview #subGroup1 source Source dimY=source dimensions Regulatory_Build=EnsRegBuild Transcription_Factor_Binding_Site_Peaks_Summary=TFBS #correct subGroup1 source Source Regulatory_Build=EnsRegBuild Transcription_Factor_Binding_Site_Peaks_Summary=TFBS #dimensions Regulatory_Build=EnsRegBuild Transcription_Factor_Binding_Site_Peaks_Summary=TFBS sortOrder source=+ track RegBuildOverview type bigBed 9 longLabel Ensembl Regulatory label of regional function parent BuildOverview on bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.genscan.bb # wrong: #subGroups source=EnsRegBuild # correct #subGroups source=Regulatory_Build itemRgb on priority 1 shortLabel Regulatory Build visibility squish track TFBSSummary type bigWig longLabel Summary of Transcription Factor Binding Site peaks from all cell types viewLimits 0:1 color 209,157,0 parent BuildOverview on bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw subGroups source=Transcription_Factor_Binding_Site_Peaks_Summary priority 3 maxHeightPixels 128:64:16 shortLabel TFBS Summary visibility full autoscale off track MissingSubs compositeTrack on subGroup1 sub1 Sub1 tagA=valA tagB=valB subGroup2 sub2 Sub2 tagC=valC tagD=valD type bigBed 9 shortLabel TwoSubgroupDefs longLabel Two Subgroup Definitions track track1 shortLabel missingSub1 longLabel Missing Subgroup1 type bigBed 9 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.genscan.bb parent MissingSubs subGroups sub1=tagA sub2=tagD track track2 shortLabel missingSub2 longLabel Missing Subgroup2 type bigBed 9 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.genscan.bb parent MissingSubs subGroups sub2=tagD track multiWigExample container multiWig shortLabel multiWigExample longLabel example Container MultiWig type bigWig autoScale on track multiWigSubtrack1 bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw parent multiWigExample shortLabel wig1 longLabel wig1 track multiWigSubtrack2 parent multiWigExample bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw shortLabel wig2 longLabel wig2 track multiWigSubtrack3 parent multiWigExample bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw shortLabel wig3 longLabel wig3 track multiWigSubtrack4 parent multiWigExample bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw shortLabel wig4 longLabel wig4 track multiWigSubtrack5 parent multiWigExample bigDataUrl https://genome-test.gi.ucsc.edu/~hiram/hubs/Plants/araTha1/bbi/araTha1.gc5Base.bw shortLabel wig5 longLabel wig5