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MultiWayLaneLayer

Auto-generated from the config schema in the source — see the config guide for concepts. Provided by the linear-comparative-view plugin. View source.

One row of data drawn in every lane through that lane's own frame, from each genome's own track, on one value scale shared by every lane.

Example usage

GC percent as bars above every lane's genes, from each genome's UCSC gc5Base bigWig added as a track with the trackId <genome>-gc5Base:

{
  type: 'MultiWaySyntenyDisplay',
  displayId: 'hg38_liftover_multiway-MultiWaySyntenyDisplay',
  laneLayers: [
    {
      name: 'GC %',
      tracks: ['{assembly}-gc5Base'],
      marks: [{ mark: 'bar', encoding: { y: 'score' } }],
    },
  ],
}

GC content computed from each genome's own sequence, one entry for every lane, a hub star's lanes on genomes the session lacks included:

{
  type: 'MultiWaySyntenyDisplay',
  displayId: 'hg38_liftOver_multiway-MultiWaySyntenyDisplay',
  laneLayers: [
    {
      name: 'GC',
      adapter: { type: 'GCContentAdapter', windowSize: 1000, windowDelta: 1000 },
      marks: [{ mark: 'bar', encoding: { y: 'score' } }],
    },
  ],
}

Config slots

Slot types (fileLocation, frozen, ...) are explained in the config slot types reference. Slots a base configuration contributes are listed here too, so this table is the whole surface.

SlotDescription
name
string = ''		label of the layer's band
tracks
stringArray = []		the trackIds the lanes draw the layer from, matched to a lane by the track's assembly. An entry spelling {assembly}, such as {assembly}-gc5Base, names in each lane the track whose id has that lane's genome, or any of its aliases, written there. Plain ids outrank {assembly} entries, and an earlier entry outranks a later one. A lane no entry names draws an empty band
adapter
maybeFrozen = undefined		an adapter computing from the sequence, such as { type: 'GCContentAdapter' }, which each lane that tracks names nothing for reads through that lane's genome. A lane reads it only while its window is under 5 Mb, since that window is the sequence it downloads, and the band's title tells the reader to zoom in past that
height
number = 24		px of band the layer takes in each lane
marks
markListSchema([{ mark: 'bar', encoding: { y: 'score' } }])		The mark display's marks, drawn over each lane's features; a mean such as a bigWig's score compares across lanes, where a count or sum reads denser on a zoomed-out lane.