track cactus
compositeTrack on
shortLabel Cactus
longLabel Cactus Alignment Tracks
group compGeno
subGroup1 view Track_Type Snake=Alignments Simplified=Simplified Chained=Chained
subGroup2 orgs Organisms t2t-chm13-v1.1=t2t-chm13-v1.1 GRCh38=GRCh38
dragAndDrop subTracks
dimensions dimensionX=view dimensionY=orgs
noInherit on
centerLabelsDense on
visibility hide
type bigBed 3
priority 1
html cactus.html

    track cactusAlignments
    shortLabel Alignments
    view Alignments
    visibility full
    subTrack cactus

        track snakeGRCh38
        longLabel Cactus GRCh38
        shortLabel GRCh38
        otherSpecies GRCh38
        visibility full
        parent cactusAlignments on
        priority 1
        bigDataUrl cactus/t2t-chm13-v1.1.hal
        type halSnake
        group compGeno
        subGroups view=Snake orgs=GRCh38
        html cactus.html

        track snaket2t-chm13-v1.1
        longLabel Cactus t2t-chm13-v1.1
        shortLabel t2t-chm13-v1.1
        otherSpecies t2t-chm13-v1.1
        visibility hide
        parent cactusAlignments off
        priority 2
        bigDataUrl cactus/t2t-chm13-v1.1.hal
        type halSnake
        group compGeno
        subGroups view=Snake orgs=t2t-chm13-v1.1
        html cactus.html

track cactusSimplified
#compositeTrack on
superTrack on
shortLabel Cactus (simplified)
longLabel Cactus Alignment Tracks (simplified)
group compGeno
visibility hide
type bigPsl
priority 2
html cactus.html

        track cactusSimplifiedChained
        parent cactusSimplified
        shortLabel hg38 Cactus Chained
        longLabel  hg38 Cactus Chained Alignments
        type bigPsl
        color 20,0,120
        visibility hide
        bigDataUrl cactus/t2t-chm13-v1.1.hg38.cactus.chained.bigPsl
        priority 9
        group compGeno
        #subGroups view=Chained orgs=GRCH38
        html cactus.html
        #configurable on

        track cactusSimplifiedUnchained
        parent cactusSimplified
        shortLabel hg38 Cactus
        longLabel  hg38 Cactus Alignments not chained
        type bigPsl
        color 120,0,20
        visibility hide
        bigDataUrl cactus/t2t-chm13-v1.1.hg38.cactus.bigPsl
        priority 10
        group compGeno
        #subGroups view=Chained orgs=GRCH38
        html cactus.html
        #configurable on

        track cactusSimplifiedLifted
        parent cactusSimplified
        shortLabel hg38 Cactus Lifted
        longLabel  hg38 Cactus Alignments Lifted from V1.0
        type bigPsl
        color 120,0,120
        visibility hide
        bigDataUrl cactus/t2t-chm13-v1.1.liftover.hg38.cactus.bigPsl
        priority 11
        group compGeno
        #subGroups view=Lifted orgs=GRCH38
        html cactus.html
        #configurable on