CytobandAdapter

Auto-generated config schema for the current JBrowse release — see the config guide for concepts. Built into JBrowse core. View source.

Example usage#

Goes on an ASSEMBLY, under cytobands — not on a track. It draws the ideogram banding in the linear genome view's overview bar:

{
  name: 'hg38',
  sequence: {
    type: 'ReferenceSequenceTrack',
    trackId: 'hg38-ReferenceSequenceTrack',
    adapter: {
      type: 'BgzipFastaAdapter',
      uri: 'https://example.com/hg38.fa.gz',
    },
  },
  cytobands: {
    adapter: {
      type: 'CytobandAdapter',
      uri: 'https://example.com/hg38.cytoBand.txt.gz',
    },
  },
}

See the Config slots section below for all available configuration fields.

Config slots#

These slots go inside the track's adapter: "adapter": { "type": "CytobandAdapter", ... }. It also accepts the shorthand keys uri, baseUri in place of writing a location slot out. 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.