include V1_QC_tracks.txt
include repeats.txt
include strandseq.txt
include AGP.txt
include RefSeq.txt
include read_depth.txt
include clone_ends.txt
include wgac.txt
include SV.txt
include sda_collapses.txt
include isoseq_bams.txt
include filtered_transmap.txt
include consensus.txt
include transmap.txt
include augustus_cgp.txt
include evaluation.txt
include augustus_pb.txt


track hubCentral
compositeTrack on
shortLabel Cactus
longLabel Cactus Alignment Tracks
group cat_tracks
subGroup1 view Track_Type Snake=Alignments
subGroup2 orgs Organisms Chimp=Chimp Bonobo=Bonobo Gorilla=Gorilla Orangutan=Orangutan Gibbon=Gibbon Rhesus=Rhesus Owl_monkey=Owl_monkey Marmoset=Marmoset Human=Human
dragAndDrop subTracks
dimensions dimensionX=view dimensionY=orgs
noInherit on
priority 0
centerLabelsDense on
visibility full
type bigBed 3

    track hubCentralAlignments
    shortLabel Alignments
    view Alignments
    visibility full
    subTrack hubCentral

        track snakeChimp
        longLabel Chimp
        shortLabel Chimp
        otherSpecies Chimp
        visibility hide
        parent hubCentralAlignments off
        priority 3
        bigDataUrl ../primates_eichler.hal
        type halSnake
        group snake
        subGroups view=Snake orgs=Chimp

        track snakeBonobo
        longLabel Bonobo
        shortLabel Bonobo
        otherSpecies Bonobo
        visibility hide
        parent hubCentralAlignments off
        priority 3
        bigDataUrl ../primates_eichler.hal
        type halSnake
        group snake
        subGroups view=Snake orgs=Bonobo

        track snakeGorilla
        longLabel Gorilla
        shortLabel Gorilla
        otherSpecies Gorilla
        visibility hide
        parent hubCentralAlignments off
        priority 3
        bigDataUrl ../primates_eichler.hal
        type halSnake
        group snake
        subGroups view=Snake orgs=Gorilla

        track snakeOrangutan
        longLabel Orangutan
        shortLabel Orangutan
        otherSpecies Orangutan
        visibility hide
        parent hubCentralAlignments off
        priority 3
        bigDataUrl ../primates_eichler.hal
        type halSnake
        group snake
        subGroups view=Snake orgs=Orangutan

        track snakeGibbon
        longLabel Gibbon
        shortLabel Gibbon
        otherSpecies Gibbon
        visibility hide
        parent hubCentralAlignments off
        priority 3
        bigDataUrl ../primates_eichler.hal
        type halSnake
        group snake
        subGroups view=Snake orgs=Gibbon

        track snakeRhesus
        longLabel Rhesus
        shortLabel Rhesus
        otherSpecies Rhesus
        visibility hide
        parent hubCentralAlignments off
        priority 3
        bigDataUrl ../primates_eichler.hal
        type halSnake
        group snake
        subGroups view=Snake orgs=Rhesus

        track snakeOwl_monkey
        longLabel Owl_monkey
        shortLabel Owl_monkey
        otherSpecies Owl_monkey
        visibility hide
        parent hubCentralAlignments off
        priority 3
        bigDataUrl ../primates_eichler.hal
        type halSnake
        group snake
        subGroups view=Snake orgs=Owl_monkey

        track snakeMarmoset
        longLabel Marmoset
        shortLabel Marmoset
        otherSpecies Marmoset
        visibility hide
        parent hubCentralAlignments off
        priority 3
        bigDataUrl ../primates_eichler.hal
        type halSnake
        group snake
        subGroups view=Snake orgs=Marmoset

        track snakeHuman
        longLabel Human
        shortLabel Human
        otherSpecies Human
        visibility full
        parent hubCentralAlignments off
        priority 3
        bigDataUrl ../primates_eichler.hal
        type halSnake
        group snake
        subGroups view=Snake orgs=Human